Search to RefSeqBP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-002510
(2005 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001178084.1| homeobox protein Nkx-3.1 [Bos taurus]. 296 6e-80
Alignment gi|XP_002689825.1| PREDICTED: NK3 homeobox 1-like [Bos taurus]. 296 6e-80
Alignment gi|NP_001180062.1| homeobox protein Nkx-3.2 [Bos taurus]. 115 2e-25
Alignment gi|XP_002688506.1| PREDICTED: NK3 homeobox 2-like [Bos taurus]. 115 2e-25
Alignment gi|NP_001178387.1| NK2 homeobox 1 [Bos taurus]. 89 1e-17
Alignment gi|NP_001029848.1| homeobox protein Nkx-2.3 [Bos taurus]. 89 1e-17
Alignment gi|XP_002696755.1| PREDICTED: NK2 homeobox 1 isoform 2 [Bos tau... 89 1e-17
Alignment gi|XP_002696754.1| PREDICTED: NK2 homeobox 1 isoform 1 [Bos tau... 89 1e-17
Alignment gi|XP_880071.2| PREDICTED: thyroid transcription factor 1 isofo... 89 1e-17
Alignment gi|NP_001179092.1| homeobox protein Nkx-2.8 [Bos taurus]. 88 2e-17
>ref|NP_001178084.1| homeobox protein Nkx-3.1 [Bos taurus].
Length = 243
Score = 296 bits (757), Expect = 6e-80
Identities = 154/239 (64%), Positives = 165/239 (69%)
Frame = +1
Query: 94 PELRPGEGGTAGCSPRAAPPIQSKPLTSFLIQDILRDRTEQCGGQAGSXXXXXXXXXXXX 273
PE + G G AGCSP A PP Q+KPLTSFLIQDILRD ++ GG AGS
Sbjct: 5 PEPQLGNAGAAGCSPPAVPPTQTKPLTSFLIQDILRDGADRRGGHAGSPQPQPSRQQYPR 64
Query: 274 XXXXXXXKGGRGSAGAPEDHRXXXXXXXXRXXXXXXXXXXDRHLETYLLDCENTPGALPS 453
+G RG A APED + RHLETYLLDCEN P AL S
Sbjct: 65 RDPKPEPEGRRGCARAPEDQQSDQPRAGSEEAEKPVETEPGRHLETYLLDCENPPSALQS 124
Query: 454 LPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 633
LPP KQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR
Sbjct: 125 LPPATKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 184
Query: 634 RYKTKRKQLTSDLGDLEKHPSLPALKEEGFSRASLIAMHHTXXXXXXXXXXXXWSPAFW 810
RYKTKRKQLTSDLG+LEKH SLPALKEEGFS+ SLI++H+T WSPAFW
Sbjct: 185 RYKTKRKQLTSDLGNLEKHSSLPALKEEGFSQGSLISVHNTYPYYPYVYCLGGWSPAFW 243
>ref|XP_002689825.1| PREDICTED: NK3 homeobox 1-like [Bos taurus].
Length = 243
Score = 296 bits (757), Expect = 6e-80
Identities = 154/239 (64%), Positives = 165/239 (69%)
Frame = +1
Query: 94 PELRPGEGGTAGCSPRAAPPIQSKPLTSFLIQDILRDRTEQCGGQAGSXXXXXXXXXXXX 273
PE + G G AGCSP A PP Q+KPLTSFLIQDILRD ++ GG AGS
Sbjct: 5 PEPQLGNAGAAGCSPPAVPPTQTKPLTSFLIQDILRDGADRRGGHAGSPQPQPSRQQYPR 64
Query: 274 XXXXXXXKGGRGSAGAPEDHRXXXXXXXXRXXXXXXXXXXDRHLETYLLDCENTPGALPS 453
+G RG A APED + RHLETYLLDCEN P AL S
Sbjct: 65 RDPKPEPEGRRGCARAPEDQQSDQPRAGSEEAEKPVETEPGRHLETYLLDCENPPSALQS 124
Query: 454 LPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 633
LPP KQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR
Sbjct: 125 LPPATKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 184
Query: 634 RYKTKRKQLTSDLGDLEKHPSLPALKEEGFSRASLIAMHHTXXXXXXXXXXXXWSPAFW 810
RYKTKRKQLTSDLG+LEKH SLPALKEEGFS+ SLI++H+T WSPAFW
Sbjct: 185 RYKTKRKQLTSDLGNLEKHSSLPALKEEGFSQGSLISVHNTYPYYPYVYCLGGWSPAFW 243
>ref|NP_001180062.1| homeobox protein Nkx-3.2 [Bos taurus].
Length = 330
Score = 115 bits (287), Expect = 2e-25
Identities = 54/72 (75%), Positives = 62/72 (86%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
P PK +KRSRAAFSH QV ELER+F+HQ+YLS PERA LA +LKLTETQVKIWFQNRR
Sbjct: 196 PAAPKPRKKRSRAAFSHAQVFELERRFNHQRYLSGPERADLAASLKLTETQVKIWFQNRR 255
Query: 637 YKTKRKQLTSDL 672
YKTKR+Q+ +DL
Sbjct: 256 YKTKRRQMAADL 267
>ref|XP_002688506.1| PREDICTED: NK3 homeobox 2-like [Bos taurus].
Length = 330
Score = 115 bits (287), Expect = 2e-25
Identities = 54/72 (75%), Positives = 62/72 (86%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
P PK +KRSRAAFSH QV ELER+F+HQ+YLS PERA LA +LKLTETQVKIWFQNRR
Sbjct: 196 PAAPKPRKKRSRAAFSHAQVFELERRFNHQRYLSGPERADLAASLKLTETQVKIWFQNRR 255
Query: 637 YKTKRKQLTSDL 672
YKTKR+Q+ +DL
Sbjct: 256 YKTKRRQMAADL 267
>ref|NP_001178387.1| NK2 homeobox 1 [Bos taurus].
Length = 370
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|NP_001029848.1| homeobox protein Nkx-2.3 [Bos taurus].
Length = 367
Score = 89.4 bits (220), Expect = 1e-17
Identities = 47/84 (55%), Positives = 57/84 (67%)
Frame = +1
Query: 421 DCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLT 600
DC+ A S P P+ +++ R FS QV ELER+F Q+YLSAPER HLA +LKLT
Sbjct: 134 DCK---AAEESERPKPRS-RRKPRVLFSQAQVFELERRFKQQRYLSAPEREHLASSLKLT 189
Query: 601 ETQVKIWFQNRRYKTKRKQLTSDL 672
TQVKIWFQNRRYK KR++ L
Sbjct: 190 STQVKIWFQNRRYKCKRQRQDKSL 213
>ref|XP_002696755.1| PREDICTED: NK2 homeobox 1 isoform 2 [Bos taurus].
Length = 400
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 182 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 241
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 242 HRYKMKRQ 249
>ref|XP_002696754.1| PREDICTED: NK2 homeobox 1 isoform 1 [Bos taurus].
Length = 370
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|XP_880071.2| PREDICTED: thyroid transcription factor 1 isoform 4 [Bos taurus].
Length = 400
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 182 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 241
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 242 HRYKMKRQ 249
>ref|NP_001179092.1| homeobox protein Nkx-2.8 [Bos taurus].
Length = 237
Score = 88.2 bits (217), Expect = 2e-17
Identities = 42/77 (54%), Positives = 52/77 (67%)
Frame = +1
Query: 421 DCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLT 600
D P A P+ P + + +K+ R FS Q +ELER+F Q+YLSAPER LA+ L+LT
Sbjct: 65 DSSQRPSARPASPGSDAEKRKKRRVLFSKAQTLELERRFRQQRYLSAPEREQLARLLRLT 124
Query: 601 ETQVKIWFQNRRYKTKR 651
TQVKIWFQN RYK KR
Sbjct: 125 PTQVKIWFQNHRYKLKR 141
Database: RefSeq49_BP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 17,681,374
Number of sequences in database: 33,088
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 71,074,971
Number of extensions: 2020215
Number of successful extensions: 9571
Number of sequences better than 1.0e-05: 192
Number of HSP's gapped: 9553
Number of HSP's successfully gapped: 193
Length of query: 668
Length of database: 17,681,374
Length adjustment: 109
Effective length of query: 559
Effective length of database: 14,074,782
Effective search space: 7867803138
Effective search space used: 7867803138
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-002510
(2005 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_543240.2| PREDICTED: similar to Homeobox protein Nkx-3.1 ... 230 4e-60
Alignment gi|XP_545940.2| PREDICTED: similar to bagpipe homeobox 1 [Canis... 115 2e-25
Alignment gi|XP_852202.1| PREDICTED: similar to NK2 transcription factor ... 92 2e-18
Alignment gi|NP_001003260.1| thyroid transcription factor 1 [Canis lupus ... 89 1e-17
Alignment gi|XP_543239.2| PREDICTED: similar to NK2 transcription factor ... 89 2e-17
Alignment gi|XP_849082.1| PREDICTED: similar to Homeobox protein Nkx-2.4 ... 86 2e-16
Alignment gi|NP_001010959.1| homeobox protein Nkx-2.5 [Canis lupus famili... 82 2e-15
Alignment gi|XP_542867.2| PREDICTED: similar to NK2 transcription factor ... 78 3e-14
Alignment gi|XP_855075.1| PREDICTED: similar to T-cell leukemia homeobox ... 75 2e-13
Alignment gi|XP_546241.2| PREDICTED: similar to T-cell leukemia homeobox ... 74 4e-13
>ref|XP_543240.2| PREDICTED: similar to Homeobox protein Nkx-3.1 [Canis familiaris].
Length = 206
Score = 230 bits (586), Expect = 4e-60
Identities = 112/139 (80%), Positives = 120/139 (86%)
Frame = +1
Query: 394 DRHLETYLLDCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERA 573
+RH ETYLLDCEN+ G+LPSLP T KQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERA
Sbjct: 68 NRHFETYLLDCENSAGSLPSLPQTSKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERA 127
Query: 574 HLAKNLKLTETQVKIWFQNRRYKTKRKQLTSDLGDLEKHPSLPALKEEGFSRASLIAMHH 753
HLAKNLKLTETQVKIWFQNRRYKTKRKQLTSDLGDLEKH SLPALKEEG +ASLI+MH+
Sbjct: 128 HLAKNLKLTETQVKIWFQNRRYKTKRKQLTSDLGDLEKHSSLPALKEEGLPQASLISMHN 187
Query: 754 TXXXXXXXXXXXXWSPAFW 810
+ W+PAFW
Sbjct: 188 SYPYYPYLYCLGGWNPAFW 206
>ref|XP_545940.2| PREDICTED: similar to bagpipe homeobox 1 [Canis familiaris].
Length = 333
Score = 115 bits (287), Expect = 2e-25
Identities = 54/72 (75%), Positives = 62/72 (86%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
P PK +KRSRAAFSH QV ELER+F+HQ+YLS PERA LA +LKLTETQVKIWFQNRR
Sbjct: 199 PAAPKPRKKRSRAAFSHAQVFELERRFNHQRYLSGPERADLAASLKLTETQVKIWFQNRR 258
Query: 637 YKTKRKQLTSDL 672
YKTKR+Q+ +DL
Sbjct: 259 YKTKRRQMAADL 270
>ref|XP_852202.1| PREDICTED: similar to NK2 transcription factor related, locus 8
[Canis familiaris].
Length = 239
Score = 91.7 bits (226), Expect = 2e-18
Identities = 50/103 (48%), Positives = 62/103 (60%)
Frame = +1
Query: 406 ETYLLDCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAK 585
ET D P A P+ P + + +K+ R FS Q +ELER+F Q+YLSAPER LA+
Sbjct: 60 ETSPPDSSQRPSARPASPGSDAEKRKKRRVLFSKAQTLELERRFRQQRYLSAPEREQLAR 119
Query: 586 NLKLTETQVKIWFQNRRYKTKRKQLTSDLGDLEKHPSLPALKE 714
L+LT TQVKIWFQN RYK KR + G +E P L A E
Sbjct: 120 LLRLTPTQVKIWFQNHRYKLKRARAPGAPGAMEP-PDLAASAE 161
>ref|NP_001003260.1| thyroid transcription factor 1 [Canis lupus familiaris].
Length = 371
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|XP_543239.2| PREDICTED: similar to NK2 transcription factor related, locus 6
[Canis familiaris].
Length = 342
Score = 89.0 bits (219), Expect = 2e-17
Identities = 47/80 (58%), Positives = 56/80 (70%), Gaps = 1/80 (1%)
Frame = +1
Query: 466 PKQPQKRS-RAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYK 642
PK+ Q+R R FS QV+ LER+F Q+YLSAPER HLA L+LT TQVKIWFQNRRYK
Sbjct: 170 PKERQRRRPRVLFSQAQVLALERRFKQQRYLSAPEREHLAGALQLTPTQVKIWFQNRRYK 229
Query: 643 TKRKQLTSDLGDLEKHPSLP 702
KR++ L +L HP P
Sbjct: 230 CKRQRQDKSL-ELAGHPLAP 248
>ref|XP_849082.1| PREDICTED: similar to Homeobox protein Nkx-2.4 (Homeobox protein
NKX2.4) (Homeobox protein NK-2 homolog D) [Canis
familiaris].
Length = 233
Score = 85.5 bits (210), Expect = 2e-16
Identities = 42/80 (52%), Positives = 50/80 (62%)
Frame = +1
Query: 415 LLDCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLK 594
+ D T L + P+++ R FS QV ELER+F QKYLSAPER HLA +
Sbjct: 44 IADAAKTLAPLHAAAAAAAAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIH 103
Query: 595 LTETQVKIWFQNRRYKTKRK 654
LT TQVKIWFQN RYK KR+
Sbjct: 104 LTPTQVKIWFQNHRYKMKRQ 123
>ref|NP_001010959.1| homeobox protein Nkx-2.5 [Canis lupus familiaris].
Length = 322
Score = 82.0 bits (201), Expect = 2e-15
Identities = 39/60 (65%), Positives = 46/60 (76%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 657
+++ R FS QV ELER+F Q+YLSAPER LA LKLT TQVKIWFQNRRYK KR++
Sbjct: 137 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKCKRQR 196
>ref|XP_542867.2| PREDICTED: similar to NK2 transcription factor related, locus 2
[Canis familiaris].
Length = 273
Score = 78.2 bits (191), Expect = 3e-14
Identities = 36/58 (62%), Positives = 43/58 (74%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKR 651
+++ R FS Q ELER+F Q+YLSAPER HLA ++LT TQVKIWFQN RYK KR
Sbjct: 128 KRKRRVLFSKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKMKR 185
>ref|XP_855075.1| PREDICTED: similar to T-cell leukemia homeobox protein 2 (Homeobox
protein Hox-11L1) (Homeobox TLX-2) (PMUR10F) [Canis
familiaris].
Length = 284
Score = 75.5 bits (184), Expect = 2e-13
Identities = 40/79 (50%), Positives = 53/79 (67%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
PP K+P R +FS +QV+ELER+F QKYL++ ERA LAK L++T+ QVK WFQNRR
Sbjct: 154 PPKRKKP----RTSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRR 209
Query: 637 YKTKRKQLTSDLGDLEKHP 693
K + + G E+HP
Sbjct: 210 TKWRGPKAKEPQG--ERHP 226
>ref|XP_546241.2| PREDICTED: similar to T-cell leukemia homeobox protein 3 (Homeobox
protein Hox-11L2) [Canis familiaris].
Length = 637
Score = 74.3 bits (181), Expect = 4e-13
Identities = 36/66 (54%), Positives = 48/66 (72%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
PP K+P R +FS Q+ ELE++F QKYL++ ERA LAK+LK+T+ QVK WFQNRR
Sbjct: 509 PPKRKKP----RTSFSRVQICELEKRFHRQKYLASAERAALAKSLKMTDAQVKTWFQNRR 564
Query: 637 YKTKRK 654
K +R+
Sbjct: 565 TKWRRQ 570
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 73,893,220
Number of extensions: 2045663
Number of successful extensions: 9579
Number of sequences better than 1.0e-05: 150
Number of HSP's gapped: 9556
Number of HSP's successfully gapped: 151
Length of query: 668
Length of database: 18,874,504
Length adjustment: 109
Effective length of query: 559
Effective length of database: 15,240,880
Effective search space: 8519651920
Effective search space used: 8519651920
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-002510
(2005 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_006158.2| homeobox protein Nkx-3.1 [Homo sapiens]. 269 8e-72
Alignment gi|NP_001180.1| homeobox protein Nkx-3.2 [Homo sapiens]. 115 2e-25
Alignment gi|NP_055175.2| homeobox protein Nkx-2.8 [Homo sapiens]. 90 9e-18
Alignment gi|NP_660328.2| homeobox protein Nkx-2.3 [Homo sapiens]. 90 9e-18
Alignment gi|NP_001129743.2| homeobox protein Nkx-2.6 [Homo sapiens]. 89 1e-17
Alignment gi|NP_003308.1| homeobox protein Nkx-2.1 isoform 2 [Homo sapien... 89 1e-17
Alignment gi|NP_001073136.1| homeobox protein Nkx-2.1 isoform 1 [Homo sap... 89 1e-17
Alignment gi|NP_149416.1| homeobox protein Nkx-2.4 [Homo sapiens]. 84 5e-16
Alignment gi|NP_004378.1| homeobox protein Nkx-2.5 isoform 1 [Homo sapien... 84 6e-16
Alignment gi|NP_002500.1| homeobox protein Nkx-2.2 [Homo sapiens]. 78 3e-14
>ref|NP_006158.2| homeobox protein Nkx-3.1 [Homo sapiens].
Length = 234
Score = 269 bits (687), Expect = 8e-72
Identities = 146/239 (61%), Positives = 160/239 (66%)
Frame = +1
Query: 94 PELRPGEGGTAGCSPRAAPPIQSKPLTSFLIQDILRDRTEQCGGQAGSXXXXXXXXXXXX 273
PE RPGE G AAPP SKPLTSFLIQDILRD ++ GG+ S
Sbjct: 5 PEPRPGEAKAEG----AAPPTPSKPLTSFLIQDILRDGAQRQGGRTSSQRQRDPEPEPEP 60
Query: 274 XXXXXXXKGGRGSAGAPEDHRXXXXXXXXRXXXXXXXXXXDRHLETYLLDCENTPGALPS 453
+GGR AGA D +RHL +YLLD ENT GALP
Sbjct: 61 EP-----EGGRSRAGAQNDQLSTGPRAAPEEAETLAETEPERHLGSYLLDSENTSGALPR 115
Query: 454 LPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 633
LP TPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR
Sbjct: 116 LPQTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 175
Query: 634 RYKTKRKQLTSDLGDLEKHPSLPALKEEGFSRASLIAMHHTXXXXXXXXXXXXWSPAFW 810
RYKTKRKQL+S+LGDLEKH SLPALKEE FSRASL++++++ WSPAFW
Sbjct: 176 RYKTKRKQLSSELGDLEKHSSLPALKEEAFSRASLVSVYNSYPYYPYLYCVGSWSPAFW 234
>ref|NP_001180.1| homeobox protein Nkx-3.2 [Homo sapiens].
Length = 333
Score = 115 bits (287), Expect = 2e-25
Identities = 54/72 (75%), Positives = 62/72 (86%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
P PK +KRSRAAFSH QV ELER+F+HQ+YLS PERA LA +LKLTETQVKIWFQNRR
Sbjct: 199 PAAPKPRKKRSRAAFSHAQVFELERRFNHQRYLSGPERADLAASLKLTETQVKIWFQNRR 258
Query: 637 YKTKRKQLTSDL 672
YKTKR+Q+ +DL
Sbjct: 259 YKTKRRQMAADL 270
>ref|NP_055175.2| homeobox protein Nkx-2.8 [Homo sapiens].
Length = 239
Score = 89.7 bits (221), Expect = 9e-18
Identities = 45/83 (54%), Positives = 54/83 (65%)
Frame = +1
Query: 403 LETYLLDCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLA 582
LET D P A P+ P + + +K+ R FS Q +ELER+F Q+YLSAPER LA
Sbjct: 59 LETSPPDSSQRPSARPASPGSDAEKRKKRRVLFSKAQTLELERRFRQQRYLSAPEREQLA 118
Query: 583 KNLKLTETQVKIWFQNRRYKTKR 651
L+LT TQVKIWFQN RYK KR
Sbjct: 119 SLLRLTPTQVKIWFQNHRYKLKR 141
>ref|NP_660328.2| homeobox protein Nkx-2.3 [Homo sapiens].
Length = 364
Score = 89.7 bits (221), Expect = 9e-18
Identities = 50/94 (53%), Positives = 61/94 (64%)
Frame = +1
Query: 421 DCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLT 600
DC+ A S P P+ +++ R FS QV ELER+F Q+YLSAPER HLA +LKLT
Sbjct: 133 DCK---AAEESERPKPRS-RRKPRVLFSQAQVFELERRFKQQRYLSAPEREHLASSLKLT 188
Query: 601 ETQVKIWFQNRRYKTKRKQLTSDLGDLEKHPSLP 702
TQVKIWFQNRRYK KR++ L +L H P
Sbjct: 189 STQVKIWFQNRRYKCKRQRQDKSL-ELGAHAPPP 221
>ref|NP_001129743.2| homeobox protein Nkx-2.6 [Homo sapiens].
Length = 301
Score = 89.4 bits (220), Expect = 1e-17
Identities = 47/80 (58%), Positives = 55/80 (68%), Gaps = 1/80 (1%)
Frame = +1
Query: 466 PKQPQKRS-RAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYK 642
PK Q+R R FS QV+ LER+F Q+YLSAPER HLA L+LT TQVKIWFQNRRYK
Sbjct: 127 PKARQRRKPRVLFSQAQVLALERRFKQQRYLSAPEREHLASALQLTSTQVKIWFQNRRYK 186
Query: 643 TKRKQLTSDLGDLEKHPSLP 702
KR++ L +L HP P
Sbjct: 187 CKRQRQDKSL-ELAGHPLTP 205
>ref|NP_003308.1| homeobox protein Nkx-2.1 isoform 2 [Homo sapiens].
Length = 371
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|NP_001073136.1| homeobox protein Nkx-2.1 isoform 1 [Homo sapiens].
Length = 401
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 182 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 241
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 242 HRYKMKRQ 249
>ref|NP_149416.1| homeobox protein Nkx-2.4 [Homo sapiens].
Length = 354
Score = 84.0 bits (206), Expect = 5e-16
Identities = 39/60 (65%), Positives = 45/60 (75%)
Frame = +1
Query: 475 PQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK 654
P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN RYK KR+
Sbjct: 188 PRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQ 247
>ref|NP_004378.1| homeobox protein Nkx-2.5 isoform 1 [Homo sapiens].
Length = 324
Score = 83.6 bits (205), Expect = 6e-16
Identities = 45/78 (57%), Positives = 53/78 (67%), Gaps = 2/78 (2%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 657
+++ R FS QV ELER+F Q+YLSAPER LA LKLT TQVKIWFQNRRYK KR++
Sbjct: 138 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKCKRQR 197
Query: 658 --LTSDLGDLEKHPSLPA 705
T +L L P PA
Sbjct: 198 QDQTLELVGLPPPPPPPA 215
>ref|NP_002500.1| homeobox protein Nkx-2.2 [Homo sapiens].
Length = 273
Score = 78.2 bits (191), Expect = 3e-14
Identities = 36/58 (62%), Positives = 43/58 (74%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKR 651
+++ R FS Q ELER+F Q+YLSAPER HLA ++LT TQVKIWFQN RYK KR
Sbjct: 128 KRKRRVLFSKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKMKR 185
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 72,168,477
Number of extensions: 1990587
Number of successful extensions: 9033
Number of sequences better than 1.0e-05: 153
Number of HSP's gapped: 9019
Number of HSP's successfully gapped: 153
Length of query: 668
Length of database: 18,297,164
Length adjustment: 109
Effective length of query: 559
Effective length of database: 14,704,088
Effective search space: 8219585192
Effective search space used: 8219585192
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-002510
(2005 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_035051.1| homeobox protein Nkx-3.1 [Mus musculus]. 231 2e-60
Alignment gi|NP_031550.2| homeobox protein Nkx-3.2 [Mus musculus]. 115 2e-25
Alignment gi|NP_035050.2| homeobox protein Nkx-2.6 [Mus musculus]. 92 2e-18
Alignment gi|NP_032725.1| homeobox protein Nkx-2.3 [Mus musculus]. 89 1e-17
Alignment gi|NP_001139670.1| homeobox protein Nkx-2.1 [Mus musculus]. 89 1e-17
Alignment gi|NP_033411.3| homeobox protein Nkx-2.1 [Mus musculus]. 89 1e-17
Alignment gi|NP_075993.1| homeobox protein Nkx-2.4 [Mus musculus]. 84 4e-16
Alignment gi|NP_032726.1| homeobox protein Nkx-2.5 [Mus musculus]. 83 9e-16
Alignment gi|NP_032727.2| homeobox protein Nkx-2.8 [Mus musculus]. 81 3e-15
Alignment gi|NP_001071100.1| homeobox protein Nkx-2.2 isoform 2 [Mus musc... 78 2e-14
>ref|NP_035051.1| homeobox protein Nkx-3.1 [Mus musculus].
Length = 237
Score = 231 bits (588), Expect = 2e-60
Identities = 132/230 (57%), Positives = 146/230 (63%), Gaps = 2/230 (0%)
Frame = +1
Query: 127 GCSPRAAPPIQSKPLTSFLIQDILRDRTEQCGGQAGSXXXXXXXXXXXXXXXXXXXKGGR 306
G SP AAPP QSK LTSFLIQDILRDR E+ GG +G+ GGR
Sbjct: 16 GRSPWAAPPTQSKRLTSFLIQDILRDRAERHGGHSGNPQHSPDPRRDSAPEPDKA--GGR 73
Query: 307 GSAGAPEDHRXXXXXXXXRXXXXXXXXXXDRHLETYLLDCENTPGALPSLPPTPKQPQKR 486
G A PED D H ETYLLDCE+ PG L S P KQPQKR
Sbjct: 74 GVA--PED----PPSIRHSPAETPTEPESDAHFETYLLDCEHNPGDLASAPQVTKQPQKR 127
Query: 487 SRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQLTS 666
SRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQL+
Sbjct: 128 SRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQLSE 187
Query: 667 DLGDLEKHP--SLPALKEEGFSRASLIAMHHTXXXXXXXXXXXXWSPAFW 810
DLG LEK+ SLPALK++ SL++++ + W P+FW
Sbjct: 188 DLGVLEKNSPLSLPALKDDSLPSTSLVSVYTSYPYYPYLYCLGSWHPSFW 237
>ref|NP_031550.2| homeobox protein Nkx-3.2 [Mus musculus].
Length = 333
Score = 115 bits (287), Expect = 2e-25
Identities = 54/72 (75%), Positives = 62/72 (86%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
P PK +KRSRAAFSH QV ELER+F+HQ+YLS PERA LA +LKLTETQVKIWFQNRR
Sbjct: 199 PAAPKPRKKRSRAAFSHAQVFELERRFNHQRYLSGPERADLAASLKLTETQVKIWFQNRR 258
Query: 637 YKTKRKQLTSDL 672
YKTKR+Q+ +DL
Sbjct: 259 YKTKRRQMAADL 270
>ref|NP_035050.2| homeobox protein Nkx-2.6 [Mus musculus].
Length = 289
Score = 91.7 bits (226), Expect = 2e-18
Identities = 45/80 (56%), Positives = 57/80 (71%)
Frame = +1
Query: 463 TPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYK 642
T +PQ++SR FS QV+ LER+F Q+YL+APER HLA L+LT TQVKIWFQNRRYK
Sbjct: 118 TRTRPQRKSRVLFSQAQVLALERRFKQQRYLTAPEREHLASALQLTSTQVKIWFQNRRYK 177
Query: 643 TKRKQLTSDLGDLEKHPSLP 702
+K ++ L +L HP P
Sbjct: 178 SKSQRQDQTL-ELAGHPLAP 196
>ref|NP_032725.1| homeobox protein Nkx-2.3 [Mus musculus].
Length = 362
Score = 89.4 bits (220), Expect = 1e-17
Identities = 46/81 (56%), Positives = 56/81 (69%)
Frame = +1
Query: 460 PTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRY 639
P P+ +++ R FS QV ELER+F Q+YLSAPER HLA +LKLT TQVKIWFQNRRY
Sbjct: 140 PKPRS-RRKPRVLFSQAQVFELERRFKQQRYLSAPEREHLASSLKLTSTQVKIWFQNRRY 198
Query: 640 KTKRKQLTSDLGDLEKHPSLP 702
K KR++ L +L H P
Sbjct: 199 KCKRQRQDKSL-ELGTHAPPP 218
>ref|NP_001139670.1| homeobox protein Nkx-2.1 [Mus musculus].
Length = 372
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|NP_033411.3| homeobox protein Nkx-2.1 [Mus musculus].
Length = 372
Score = 89.4 bits (220), Expect = 1e-17
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|NP_075993.1| homeobox protein Nkx-2.4 [Mus musculus].
Length = 354
Score = 84.0 bits (206), Expect = 4e-16
Identities = 39/60 (65%), Positives = 45/60 (75%)
Frame = +1
Query: 475 PQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK 654
P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN RYK KR+
Sbjct: 187 PRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQ 246
>ref|NP_032726.1| homeobox protein Nkx-2.5 [Mus musculus].
Length = 318
Score = 82.8 bits (203), Expect = 9e-16
Identities = 45/87 (51%), Positives = 55/87 (63%), Gaps = 6/87 (6%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 657
+++ R FS QV ELER+F Q+YLSAPER LA LKLT TQVKIWFQNRRYK KR++
Sbjct: 137 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKCKRQR 196
Query: 658 LTSDLGDLEKHP------SLPALKEEG 720
L L P ++P L +G
Sbjct: 197 QDQTLELLGPPPPPARRIAVPVLVRDG 223
>ref|NP_032727.2| homeobox protein Nkx-2.8 [Mus musculus].
Length = 235
Score = 81.3 bits (199), Expect = 3e-15
Identities = 41/83 (49%), Positives = 51/83 (61%)
Frame = +1
Query: 403 LETYLLDCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLA 582
LET D P + + +++ R FS Q +ELER+F Q+YLSAPER LA
Sbjct: 56 LETSPADSSQLASLRRESPGSDPEKRRKRRVLFSKAQTLELERRFRQQRYLSAPEREQLA 115
Query: 583 KNLKLTETQVKIWFQNRRYKTKR 651
+ L+LT TQVKIWFQN RYK KR
Sbjct: 116 RLLRLTPTQVKIWFQNHRYKLKR 138
>ref|NP_001071100.1| homeobox protein Nkx-2.2 isoform 2 [Mus musculus].
Length = 248
Score = 78.2 bits (191), Expect = 2e-14
Identities = 36/58 (62%), Positives = 43/58 (74%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKR 651
+++ R FS Q ELER+F Q+YLSAPER HLA ++LT TQVKIWFQN RYK KR
Sbjct: 128 KRKRRVLFSKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKMKR 185
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 60,674,515
Number of extensions: 1643799
Number of successful extensions: 7357
Number of sequences better than 1.0e-05: 135
Number of HSP's gapped: 7345
Number of HSP's successfully gapped: 135
Length of query: 668
Length of database: 15,617,559
Length adjustment: 108
Effective length of query: 560
Effective length of database: 12,373,671
Effective search space: 6929255760
Effective search space used: 6929255760
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-002510
(2005 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_003356908.1| PREDICTED: homeobox protein Nkx-3.2-like [Su... 115 1e-25
Alignment gi|XP_003359369.1| PREDICTED: LOW QUALITY PROTEIN: homeobox pro... 89 7e-18
Alignment gi|XP_001925552.2| PREDICTED: thyroid transcription factor 1-li... 89 7e-18
Alignment gi|XP_003356737.1| PREDICTED: thyroid transcription factor 1-li... 89 7e-18
Alignment gi|XP_001925375.2| PREDICTED: homeobox protein Nkx-2.8-like [Su... 88 2e-17
Alignment gi|XP_003134089.1| PREDICTED: homeobox protein Nkx-2.5-like [Su... 84 4e-16
Alignment gi|XP_003359963.1| PREDICTED: homeobox protein Nkx-2.2-like [Su... 78 2e-14
Alignment gi|XP_003125043.1| PREDICTED: t-cell leukemia homeobox protein ... 77 4e-14
Alignment gi|XP_003134109.2| PREDICTED: t-cell leukemia homeobox protein ... 74 2e-13
Alignment gi|XP_001928044.1| PREDICTED: homeobox protein HMX3 [Sus scrofa]. 74 3e-13
>ref|XP_003356908.1| PREDICTED: homeobox protein Nkx-3.2-like [Sus scrofa].
Length = 337
Score = 115 bits (287), Expect = 1e-25
Identities = 54/72 (75%), Positives = 62/72 (86%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
P PK +KRSRAAFSH QV ELER+F+HQ+YLS PERA LA +LKLTETQVKIWFQNRR
Sbjct: 203 PAAPKPRKKRSRAAFSHAQVFELERRFNHQRYLSGPERADLAASLKLTETQVKIWFQNRR 262
Query: 637 YKTKRKQLTSDL 672
YKTKR+Q+ +DL
Sbjct: 263 YKTKRRQMAADL 274
>ref|XP_003359369.1| PREDICTED: LOW QUALITY PROTEIN: homeobox protein Nkx-2.3-like [Sus
scrofa].
Length = 367
Score = 89.4 bits (220), Expect = 7e-18
Identities = 47/84 (55%), Positives = 57/84 (67%)
Frame = +1
Query: 421 DCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLT 600
DC+ A S P P+ +++ R FS QV ELER+F Q+YLSAPER HLA +LKLT
Sbjct: 134 DCK---AAEESERPKPRS-RRKPRVLFSQAQVFELERRFKQQRYLSAPEREHLASSLKLT 189
Query: 601 ETQVKIWFQNRRYKTKRKQLTSDL 672
TQVKIWFQNRRYK KR++ L
Sbjct: 190 STQVKIWFQNRRYKCKRQRQDKSL 213
>ref|XP_001925552.2| PREDICTED: thyroid transcription factor 1-like isoform 1 [Sus
scrofa].
Length = 369
Score = 89.4 bits (220), Expect = 7e-18
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|XP_003356737.1| PREDICTED: thyroid transcription factor 1-like isoform 2 [Sus
scrofa].
Length = 369
Score = 89.4 bits (220), Expect = 7e-18
Identities = 41/68 (60%), Positives = 49/68 (72%)
Frame = +1
Query: 451 SLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 630
++ P P P+++ R FS QV ELER+F QKYLSAPER HLA + LT TQVKIWFQN
Sbjct: 152 NMAPLPSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 211
Query: 631 RRYKTKRK 654
RYK KR+
Sbjct: 212 HRYKMKRQ 219
>ref|XP_001925375.2| PREDICTED: homeobox protein Nkx-2.8-like [Sus scrofa].
Length = 241
Score = 87.8 bits (216), Expect = 2e-17
Identities = 42/77 (54%), Positives = 52/77 (67%)
Frame = +1
Query: 421 DCENTPGALPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLT 600
D P A P+ P + + +K+ R FS Q +ELER+F Q+YLSAPER LA+ L+LT
Sbjct: 65 DSSQRPSAGPASPSSDAEKRKKRRVLFSKAQTLELERRFRQQRYLSAPEREQLARLLRLT 124
Query: 601 ETQVKIWFQNRRYKTKR 651
TQVKIWFQN RYK KR
Sbjct: 125 PTQVKIWFQNHRYKLKR 141
>ref|XP_003134089.1| PREDICTED: homeobox protein Nkx-2.5-like [Sus scrofa].
Length = 323
Score = 83.6 bits (205), Expect = 4e-16
Identities = 45/78 (57%), Positives = 53/78 (67%), Gaps = 2/78 (2%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 657
+++ R FS QV ELER+F Q+YLSAPER LA LKLT TQVKIWFQNRRYK KR++
Sbjct: 137 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKCKRQR 196
Query: 658 --LTSDLGDLEKHPSLPA 705
T +L L P PA
Sbjct: 197 QDQTLELVGLPPPPPPPA 214
>ref|XP_003359963.1| PREDICTED: homeobox protein Nkx-2.2-like [Sus scrofa].
Length = 273
Score = 78.2 bits (191), Expect = 2e-14
Identities = 36/58 (62%), Positives = 43/58 (74%)
Frame = +1
Query: 478 QKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKR 651
+++ R FS Q ELER+F Q+YLSAPER HLA ++LT TQVKIWFQN RYK KR
Sbjct: 128 KRKRRVLFSKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKMKR 185
>ref|XP_003125043.1| PREDICTED: t-cell leukemia homeobox protein 2-like [Sus scrofa].
Length = 284
Score = 77.0 bits (188), Expect = 4e-14
Identities = 40/78 (51%), Positives = 56/78 (71%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
PP K+P R +FS +QV+ELER+F QKYL++ ERA LAK L++T+ QVK WFQNRR
Sbjct: 154 PPKRKKP----RTSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRR 209
Query: 637 YKTKRKQLTSDLGDLEKH 690
K +R+ T++ + E+H
Sbjct: 210 TKWRRQ--TAEEREAERH 225
>ref|XP_003134109.2| PREDICTED: t-cell leukemia homeobox protein 3-like [Sus scrofa].
Length = 291
Score = 74.3 bits (181), Expect = 2e-13
Identities = 36/66 (54%), Positives = 48/66 (72%)
Frame = +1
Query: 457 PPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 636
PP K+P R +FS Q+ ELE++F QKYL++ ERA LAK+LK+T+ QVK WFQNRR
Sbjct: 163 PPKRKKP----RTSFSRVQICELEKRFHRQKYLASAERAALAKSLKMTDAQVKTWFQNRR 218
Query: 637 YKTKRK 654
K +R+
Sbjct: 219 TKWRRQ 224
>ref|XP_001928044.1| PREDICTED: homeobox protein HMX3 [Sus scrofa].
Length = 357
Score = 73.9 bits (180), Expect = 3e-13
Identities = 44/86 (51%), Positives = 55/86 (63%), Gaps = 6/86 (6%)
Frame = +1
Query: 433 TPGA------LPSLPPTPKQPQKRSRAAFSHTQVIELERKFSHQKYLSAPERAHLAKNLK 594
TPGA S P +K++R FS +QV +LE F ++YLS+ ERA LA +L
Sbjct: 206 TPGAEDWKKGAESPEKKPACRKKKTRTVFSRSQVFQLESTFDMKRYLSSSERAGLAASLH 265
Query: 595 LTETQVKIWFQNRRYKTKRKQLTSDL 672
LTETQVKIWFQNRR K KR QL ++L
Sbjct: 266 LTETQVKIWFQNRRNKWKR-QLAAEL 290
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 46,372,806
Number of extensions: 1364145
Number of successful extensions: 6132
Number of sequences better than 1.0e-05: 120
Number of HSP's gapped: 6125
Number of HSP's successfully gapped: 120
Length of query: 668
Length of database: 11,343,932
Length adjustment: 106
Effective length of query: 562
Effective length of database: 8,704,850
Effective search space: 4892125700
Effective search space used: 4892125700
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-002510
(2005 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Sscrofa_Chr14 2625 0.0
>Sscrofa_Chr14
|| Length = 153851969
Score = 2625 bits (1324), Expect = 0.0
Identities = 1338/1345 (99%)
Strand = Plus / Minus
Query: 391 ccagataggcaccttgagacttatctgctggactgtgaaaacactccaggcgccttgccg 450
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628547 ccagataggcaccttgagacttatctgctggactgtgaaaacactccaggcgccttgccg 8628488
Query: 451 agcctgcccccaacccccaagcagccgcagaagcgctcccgggccgccttctcccacact 510
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628487 agcctgcccccaacccccaagcagccgcagaagcgctcccgggccgccttctcccacact 8628428
Query: 511 caggtcatagagttagagaggaagttcagccaccagaagtatctgtcggcccccgaaagg 570
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628427 caggtcatagagttagagaggaagttcagccaccagaagtatctgtcggcccccgaaagg 8628368
Query: 571 gctcacctggccaagaacctcaagctcacggagacccaagtgaaaatatggttccaaaat 630
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628367 gctcacctggccaagaacctcaagctcacggagacccaagtgaaaatatggttccaaaat 8628308
Query: 631 agacgctataaaaccaagcggaagcagctcacctcggacctgggggacctggagaagcac 690
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628307 agacgctataaaaccaagcggaagcagctcacctcggacctgggggacctggagaagcac 8628248
Query: 691 ccctccttgccggctctgaaggaggaaggcttctctcgggcctccctcatcgccatgcat 750
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628247 ccctccttgccggctctgaaggaggaaggcttctctcgggcctccctcatcgccatgcat 8628188
Query: 751 cacacgtacccttactacccctacctttactgcttgggaggctggagcccagctttctgg 810
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628187 cacacgtacccttactacccctacctttactgcttgggaggctggagcccagctttctgg 8628128
Query: 811 taacaacgccggctcagacaaccatgtgtgatcaaaagctgccttcccctggtggtccct 870
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628127 taacaacgccggctcagacaaccatgtgtgatcaaaagctgccttcccctggtggtccct 8628068
Query: 871 ctggaaggcagaagggcccggggtcagggaggactgggccgcaagagacctgcagactga 930
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628067 ctggaaggcagaagggcccggggtcagggaggactgggccgcaagagacctgcagactga 8628008
Query: 931 aagcactggaggtttgcttggaaatcccagattcttcactggtgtgccaatgaaagacct 990
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8628007 aagcactggaggtttgcttggaaatcccagattcttcactggtgtgccaatgaaagacct 8627948
Query: 991 gggacaggaaataacttaagagccaaataggtnnnnnnntccacgggaatgtaggtcatt 1050
|||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 8627947 gggacaggaaataacttaagagccaaataggtccccccctccacgggaatgtaggtcatt 8627888
Query: 1051 tttgctttgagagacccgcttgaagtggggcgggatacagccaagtgctgtttccagcat 1110
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627887 tttgctttgagagacccgcttgaagtggggcgggatacagccaagtgctgtttccagcat 8627828
Query: 1111 tacttgtggaggctgcccacatcacctgtgagaattctccgcctccagctccatcctctt 1170
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627827 tacttgtggaggctgcccacatcacctgtgagaattctccgcctccagctccatcctctt 8627768
Query: 1171 ttgtgactgagcatccgctcctcctgaagggggtgtgggggaggggaggagagctaagat 1230
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627767 ttgtgactgagcatccgctcctcctgaagggggtgtgggggaggggaggagagctaagat 8627708
Query: 1231 gagatgtcacctccagaattaaactgaaggtcagacgcctctcattggccttggagtatg 1290
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627707 gagatgtcacctccagaattaaactgaaggtcagacgcctctcattggccttggagtatg 8627648
Query: 1291 accacgggttgctctccatccctgggggagagcaggaagcacagggtcccacagagaagc 1350
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627647 accacgggttgctctccatccctgggggagagcaggaagcacagggtcccacagagaagc 8627588
Query: 1351 ctgtggtgctcagggcaggttggcacaggatacagagatgggtaggaggagatgaaaata 1410
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627587 ctgtggtgctcagggcaggttggcacaggatacagagatgggtaggaggagatgaaaata 8627528
Query: 1411 taagcttcttattcttccttttaaaataataggccaactgaagtatttacagggtggccc 1470
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627527 taagcttcttattcttccttttaaaataataggccaactgaagtatttacagggtggccc 8627468
Query: 1471 aagcagaacaagaagaactcactgtggttttaagacaagctgtctaaacagaaactttcc 1530
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627467 aagcagaacaagaagaactcactgtggttttaagacaagctgtctaaacagaaactttcc 8627408
Query: 1531 ctcaagaggtgggctggggccggaagaatctccccgtgtccaagacagtggcttaaggag 1590
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627407 ctcaagaggtgggctggggccggaagaatctccccgtgtccaagacagtggcttaaggag 8627348
Query: 1591 aagtccccacgcatgctgctgcggggggcctcgcatgtctttattagcaaaaggaccttt 1650
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627347 aagtccccacgcatgctgctgcggggggcctcgcatgtctttattagcaaaaggaccttt 8627288
Query: 1651 ttgccctgggcctgagaatttagaatgagaaggttcctggagttttcaggctgtaattca 1710
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627287 ttgccctgggcctgagaatttagaatgagaaggttcctggagttttcaggctgtaattca 8627228
Query: 1711 tacaacaccatgacaggtaacataa 1735
|||||||||||||||||||||||||
Sbjct: 8627227 tacaacaccatgacaggtaacataa 8627203
Score = 521 bits (263), Expect = e-145
Identities = 321/347 (92%), Gaps = 12/347 (3%)
Strand = Plus / Minus
Query: 3 aagtggtgcggccgcagccggcgcagcctgggcgcagatgcccgggcctctgctcaggcg 62
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8630186 aagtggtgcggccgcagccggcgcagcctgggcgcagatgcccgggcctctgctcaggcg 8630127
Query: 63 ccggtgctgagccgccaggatgctccgggctcccgagctacggccnnnnnnnnnnnnnac 122
| ||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 8630126 cgggtgctgagccgccaggatgctccgggctcccgagctacggccgggggagggggggac 8630067
Query: 123 ggcaggctgcagcccccgcgccgcaccacccatccagtccaagccgcttacctccttcct 182
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8630066 ggcaggctgcagcccccgcgccgcaccacccatccagtccaagccgcttacctccttcct 8630007
Query: 183 catccaggacatcctacgggaccgcacggagcagtgcggaggccaagcgggcagcccgca 242
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8630006 catccaggacatcctacgggaccgcacggagcagtgcggaggccaagcgggcagcccgca 8629947
Query: 243 gccgc------------agccccggcgccagccagaccagaggcgagaccctgagccgga 290
||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8629946 gccgcagccaccgccgcagccccggcgccagccagaccagaggcgagaccctgagccgga 8629887
Query: 291 gcccaagggaggaagaggcagcgccggggcgcctgaggaccatagga 337
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8629886 gcccaagggaggaagaggcagcgccggggcgcctgaggaccatagga 8629840
Score = 161 bits (81), Expect = 2e-36
Identities = 83/84 (98%)
Strand = Plus / Minus
Query: 1780 ccacagcanggcttcttttcagtccagacttttagtctgactgcacctaacttatgcctt 1839
|||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8627158 ccacagcagggcttcttttcagtccagacttttagtctgactgcacctaacttatgcctt 8627099
Query: 1840 ccttatttagcctgatccctagtc 1863
||||||||||||||||||||||||
Sbjct: 8627098 ccttatttagcctgatccctagtc 8627075
Database: Sscrofa_10.2.fasta
Posted date: Nov 16, 2011 10:34 AM
Number of letters in database: 2,808,509,378
Number of sequences in database: 4582
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 51,851,893
Number of extensions: 490
Number of successful extensions: 490
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 489
Number of HSP's successfully gapped: 6
Length of query: 2005
Length of database: 2,808,509,378
Length adjustment: 22
Effective length of query: 1983
Effective length of database: 2,808,408,574
Effective search space: 5569074202242
Effective search space used: 5569074202242
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)