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-001082
(1546 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_001039943.2| rhomboid domain containing 2 [Bos taurus]. 666 0.0
Alignment gi|NP_001073707.1| rhomboid domain-containing protein 3 [Bos ta... 54 4e-07
>ref|NP_001039943.2| rhomboid domain containing 2 [Bos taurus].
Length = 364
Score = 666 bits (1718), Expect = 0.0
Identities = 322/361 (89%), Positives = 335/361 (92%)
Frame = +1
Query: 94 VSEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYR 273
VSEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQ PLAPSGLSLRSEALRNWQVYR
Sbjct: 3 VSEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQQPLAPSGLSLRSEALRNWQVYR 62
Query: 274 LVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSK 453
LVTYIFVYENPVSLLCGAI+IWRFAGNFERTVGTVRHCFFTV+F + AIIFLSFEAVS
Sbjct: 63 LVTYIFVYENPVSLLCGAIVIWRFAGNFERTVGTVRHCFFTVVFTIICAIIFLSFEAVSS 122
Query: 454 LSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTS 633
LSKLGEVEDARGFTPVAFAMLGVN VR+RMRRALVFG+VVPS+LVPWLLLCASWLIPQTS
Sbjct: 123 LSKLGEVEDARGFTPVAFAMLGVNCVRSRMRRALVFGVVVPSLLVPWLLLCASWLIPQTS 182
Query: 634 FLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYIXXXXXXXXXX 813
FLSNVCGLGIGLAYGLTYC+S D+PE VA+KLDQKFPFSLMRRIS+FKYI
Sbjct: 183 FLSNVCGLGIGLAYGLTYCFSFDVPEQVAVKLDQKFPFSLMRRISMFKYISGSSAERRAA 242
Query: 814 XXXXLNPVPGSYPTQSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASG 993
NPVPGSYPTQSGHPHL PNHP AQMQHAS QKLA+WP+CAPGHMPSLPPYQPASG
Sbjct: 243 QSRKPNPVPGSYPTQSGHPHLTPNHPAAQMQHASSQKLAAWPSCAPGHMPSLPPYQPASG 302
Query: 994 LCYVQNHFGTTPNSSGVYPASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVL 1173
LCYVQNHFGTTPNSSGVYPASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVL
Sbjct: 303 LCYVQNHFGTTPNSSGVYPASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVL 362
Query: 1174 I 1176
+
Sbjct: 363 M 363
>ref|NP_001073707.1| rhomboid domain-containing protein 3 [Bos taurus].
Length = 362
Score = 53.9 bits (128), Expect = 4e-07
Identities = 68/268 (25%), Positives = 101/268 (37%), Gaps = 5/268 (1%)
Frame = +1
Query: 268 YRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAV 447
+RL+T+ + LL +++ ER +GT+R + + AL S ++ + +
Sbjct: 27 HRLLTHALGHTALPGLLLSLLLLPTLGWQQERHLGTLRFLHASSLLALASGLLAVLLAGL 86
Query: 448 SKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP- 624
G G+ PV AML R R R +P L+PWLLL + L+
Sbjct: 87 GVSGAAGGC----GYMPVHLAMLAGQGSRPRRPRG-----ALPPWLLPWLLLALTPLLSS 137
Query: 625 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYIXXXXXXX 804
+ FL CGL GLAY L+L E L + L + ++
Sbjct: 138 EPPFLQLFCGLLAGLAYAAGAFRWLELSEQRLQALQEGV---LCKALA------------ 182
Query: 805 XXXXXXXLNPVPGSYPTQSGHPHLPPNHPVAQMQHASG-QKLAS---WPACAPGHMPSLP 972
L P PG G LP HP G ++AS WP + G P LP
Sbjct: 183 -GCWPLQLLPAPG------GPAELPVAHPAGVRPPTPGPPRMASPSLWP-LSEGSAPILP 234
Query: 973 PYQPASGLCYVQNHFGTTPNSSGVYPAS 1056
+P L + G + G P +
Sbjct: 235 GLRPVQPLWEGSSEAGLAWSGPGFPPGT 262
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: 59,270,050
Number of extensions: 1845734
Number of successful extensions: 13197
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 12551
Number of HSP's successfully gapped: 2
Length of query: 515
Length of database: 17,681,374
Length adjustment: 107
Effective length of query: 408
Effective length of database: 14,140,958
Effective search space: 5769510864
Effective search space used: 5769510864
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-001082
(1546 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_546933.1| PREDICTED: similar to rhomboid, veinlet-like 7 ... 670 0.0
Alignment gi|XP_857923.1| PREDICTED: similar to rhomboid, veinlet-like 7 ... 107 4e-23
Alignment gi|XP_543467.2| PREDICTED: similar to chromosome 22 open readin... 54 3e-07
>ref|XP_546933.1| PREDICTED: similar to rhomboid, veinlet-like 7 isoform 1 [Canis
familiaris].
Length = 366
Score = 670 bits (1729), Expect = 0.0
Identities = 332/361 (91%), Positives = 336/361 (93%)
Frame = +1
Query: 97 SEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRL 276
SEP RSWSL PEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRL
Sbjct: 7 SEPACRSWSLCPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRL 66
Query: 277 VTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKL 456
VTYIFVYENP+SLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFA+ SAIIFLSFEAVS L
Sbjct: 67 VTYIFVYENPISLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFAIFSAIIFLSFEAVSSL 126
Query: 457 SKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSF 636
SKLGEVEDARGFTPVAFAMLGVNSVR+RMRRALVFGMVVPSMLVPWLLLCASWLIPQTSF
Sbjct: 127 SKLGEVEDARGFTPVAFAMLGVNSVRSRMRRALVFGMVVPSMLVPWLLLCASWLIPQTSF 186
Query: 637 LSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYIXXXXXXXXXXX 816
LSNVCGLGIGLAYGLTYCYSLDL E VALKLDQKFPFSLMRRIS+FKYI
Sbjct: 187 LSNVCGLGIGLAYGLTYCYSLDLSERVALKLDQKFPFSLMRRISVFKYISGSSAERRAAH 246
Query: 817 XXXLNPVPGSYPTQSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASGL 996
LNPVPGSYPTQSGHPHL PNHPVAQMQH SGQKLASWPACAPGHMPSLPPYQPASGL
Sbjct: 247 GRKLNPVPGSYPTQSGHPHLSPNHPVAQMQHTSGQKLASWPACAPGHMPSLPPYQPASGL 306
Query: 997 CYVQNHFGTTPNSSGVYPASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVLI 1176
CYVQNHFGTTPN SGVYPASAGASLGVQPPAPLNCPGTVYSGALATP AAGSKECSRVLI
Sbjct: 307 CYVQNHFGTTPN-SGVYPASAGASLGVQPPAPLNCPGTVYSGALATPVAAGSKECSRVLI 365
Query: 1177 P 1179
P
Sbjct: 366 P 366
>ref|XP_857923.1| PREDICTED: similar to rhomboid, veinlet-like 7 isoform 2 [Canis
familiaris].
Length = 82
Score = 107 bits (266), Expect = 4e-23
Identities = 53/56 (94%), Positives = 53/56 (94%)
Frame = +1
Query: 97 SEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 264
SEP RSWSL PEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ
Sbjct: 7 SEPACRSWSLCPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 62
>ref|XP_543467.2| PREDICTED: similar to chromosome 22 open reading frame 3 [Canis
familiaris].
Length = 386
Score = 54.3 bits (129), Expect = 3e-07
Identities = 74/296 (25%), Positives = 112/296 (37%), Gaps = 14/296 (4%)
Frame = +1
Query: 139 PSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRN-WQVYRLVTYIFVYENPVSL 315
P+ +++L LL+S L P LA L E L + WQ +RL+T+ + L
Sbjct: 12 PALPLASSVLMLLLSSLWLVGAGPSLA-----LAPELLLDPWQAHRLLTHALGHTALPGL 66
Query: 316 LCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFT 495
L +++ E +GT+R + + AL + ++ + + S G G+
Sbjct: 67 LLSLLLLPTLGWWQECHLGTLRFLHASALLALAAGLMGVLLAGLGVSSAAGGC----GYM 122
Query: 496 PVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP-QTSFLSNVCGLGIGLA 672
PV AML R ++P L+PWLLL + L+ + FL CGL GLA
Sbjct: 123 PVHLAMLAGQGYHPRQPLG-----ILPPWLLPWLLLALTPLLSSEPPFLQLFCGLLAGLA 177
Query: 673 YGLTYCYSLDLPEH---------VALKLDQKFPFSLMRRISLFKYIXXXXXXXXXXXXXX 825
Y L+L E + L + +PF L+ +
Sbjct: 178 YAAGAFQWLELSERRLQALQEGALCRALARCWPFRLLPTPGSLAELPVIHPAAARPPTPG 237
Query: 826 LNPV--PGSYPTQSGHPHLPPN-HPVAQMQHASGQKLASWPACAPGHMPSLPPYQP 984
L + P + G LPP V Q S + A W PS PP P
Sbjct: 238 LPYMASPSLWSRSEGSAQLPPGLGSVQQTWEGSSEVGAVWAG------PSFPPGTP 287
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: 61,731,623
Number of extensions: 1896995
Number of successful extensions: 13199
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 12763
Number of HSP's successfully gapped: 3
Length of query: 515
Length of database: 18,874,504
Length adjustment: 107
Effective length of query: 408
Effective length of database: 15,307,552
Effective search space: 6245481216
Effective search space used: 6245481216
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-001082
(1546 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_001035546.1| rhomboid domain-containing protein 2 isoform... 615 e-176
Alignment gi|NP_001035547.1| rhomboid domain-containing protein 2 isoform... 365 e-101
Alignment gi|NP_036397.1| rhomboid domain-containing protein 3 [Homo sapi... 60 4e-09
>ref|NP_001035546.1| rhomboid domain-containing protein 2 isoform a [Homo sapiens].
Length = 364
Score = 615 bits (1587), Expect = e-176
Identities = 302/361 (83%), Positives = 319/361 (88%)
Frame = +1
Query: 97 SEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRL 276
S PG RSW L PEVPSATFFTALLSLLVSGPRLFLLQ PLAPSGL+L+SEALRNWQVYRL
Sbjct: 4 SGPGCRSWCLCPEVPSATFFTALLSLLVSGPRLFLLQQPLAPSGLTLKSEALRNWQVYRL 63
Query: 277 VTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKL 456
VTYIFVYENP+SLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFA+ SAIIFLSFEAVS L
Sbjct: 64 VTYIFVYENPISLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFAIFSAIIFLSFEAVSSL 123
Query: 457 SKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSF 636
SKLGEVEDARGFTPVAFAMLGV +VR+RMRRALVFGMVVPS+LVPWLLL ASWLIPQTSF
Sbjct: 124 SKLGEVEDARGFTPVAFAMLGVTTVRSRMRRALVFGMVVPSVLVPWLLLGASWLIPQTSF 183
Query: 637 LSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYIXXXXXXXXXXX 816
LSNVCGL IGLAYGLTYCYS+DL E VALKLDQ FPFSLMRRIS+FKY+
Sbjct: 184 LSNVCGLSIGLAYGLTYCYSIDLSERVALKLDQTFPFSLMRRISVFKYVSGSSAERRAAQ 243
Query: 817 XXXLNPVPGSYPTQSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASGL 996
LNPVPGSYPTQS HPHL P+HPV+Q QHASGQKLASWP+C PGHMP+LPPYQPASGL
Sbjct: 244 SRKLNPVPGSYPTQSCHPHLSPSHPVSQTQHASGQKLASWPSCTPGHMPTLPPYQPASGL 303
Query: 997 CYVQNHFGTTPNSSGVYPASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVLI 1176
CYVQNHFG P SS VYPASAG SLG+QPP P+N PGTVYSGAL TP AAGSKE SRV +
Sbjct: 304 CYVQNHFGPNPTSSSVYPASAGTSLGIQPPTPVNSPGTVYSGALGTPGAAGSKESSRVPM 363
Query: 1177 P 1179
P
Sbjct: 364 P 364
>ref|NP_001035547.1| rhomboid domain-containing protein 2 isoform b [Homo sapiens].
Length = 223
Score = 365 bits (938), Expect = e-101
Identities = 175/223 (78%), Positives = 188/223 (84%)
Frame = +1
Query: 511 MLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSFLSNVCGLGIGLAYGLTYC 690
MLGV +VR+RMRRALVFGMVVPS+LVPWLLL ASWLIPQTSFLSNVCGL IGLAYGLTYC
Sbjct: 1 MLGVTTVRSRMRRALVFGMVVPSVLVPWLLLGASWLIPQTSFLSNVCGLSIGLAYGLTYC 60
Query: 691 YSLDLPEHVALKLDQKFPFSLMRRISLFKYIXXXXXXXXXXXXXXLNPVPGSYPTQSGHP 870
YS+DL E VALKLDQ FPFSLMRRIS+FKY+ LNPVPGSYPTQS HP
Sbjct: 61 YSIDLSERVALKLDQTFPFSLMRRISVFKYVSGSSAERRAAQSRKLNPVPGSYPTQSCHP 120
Query: 871 HLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASGLCYVQNHFGTTPNSSGVYP 1050
HL P+HPV+Q QHASGQKLASWP+C PGHMP+LPPYQPASGLCYVQNHFG P SS VYP
Sbjct: 121 HLSPSHPVSQTQHASGQKLASWPSCTPGHMPTLPPYQPASGLCYVQNHFGPNPTSSSVYP 180
Query: 1051 ASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVLIP 1179
ASAG SLG+QPP P+N PGTVYSGAL TP AAGSKE SRV +P
Sbjct: 181 ASAGTSLGIQPPTPVNSPGTVYSGALGTPGAAGSKESSRVPMP 223
>ref|NP_036397.1| rhomboid domain-containing protein 3 [Homo sapiens].
Length = 386
Score = 60.5 bits (145), Expect = 4e-09
Identities = 56/181 (30%), Positives = 85/181 (46%), Gaps = 2/181 (1%)
Frame = +1
Query: 139 PSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRN-WQVYRLVTYIFVYENPVSL 315
P+ +++L LL+S L+L+ A GL L E L + WQV+RL+T+ + L
Sbjct: 12 PALPLASSVLMLLMS--TLWLVG---AGPGLVLAPELLLDPWQVHRLLTHALGHTALPGL 66
Query: 316 LCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFT 495
L +++ E +GT+R + + AL S ++ + + S G G+
Sbjct: 67 LLSLLLLPTVGWQQECHLGTLRFLHASALLALASGLLAVLLAGLGLSSAAGSC----GYM 122
Query: 496 PVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLI-PQTSFLSNVCGLGIGLA 672
PV AML R R R +P L PWLLL + L+ + FL +CGL GLA
Sbjct: 123 PVHLAMLAGEGHRPRRPRG-----ALPPWLSPWLLLALTPLLSSEPPFLQLLCGLLAGLA 177
Query: 673 Y 675
Y
Sbjct: 178 Y 178
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: 60,352,545
Number of extensions: 1837115
Number of successful extensions: 12819
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 12217
Number of HSP's successfully gapped: 3
Length of query: 515
Length of database: 18,297,164
Length adjustment: 107
Effective length of query: 408
Effective length of database: 14,770,016
Effective search space: 6026166528
Effective search space used: 6026166528
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-001082
(1546 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_666114.1| rhomboid domain-containing protein 2 [Mus muscu... 598 e-171
Alignment gi|NP_796344.1| rhomboid domain-containing protein 3 [Mus muscu... 53 7e-07
>ref|NP_666114.1| rhomboid domain-containing protein 2 [Mus musculus].
Length = 361
Score = 598 bits (1543), Expect = e-171
Identities = 297/359 (82%), Positives = 313/359 (87%)
Frame = +1
Query: 103 PGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRLVT 282
P R W PEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRLVT
Sbjct: 6 PASRFWCSCPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRLVT 65
Query: 283 YIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSK 462
YIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFT+IF + SAII+LSFE+VS LSK
Sbjct: 66 YIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTLIFTVFSAIIYLSFESVSSLSK 125
Query: 463 LGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSFLS 642
LGEVEDARGFTPVAFAMLGV SVR+RMRRALVFG+VVPS+LVPWLLLCASWLIPQTSFLS
Sbjct: 126 LGEVEDARGFTPVAFAMLGVTSVRSRMRRALVFGVVVPSVLVPWLLLCASWLIPQTSFLS 185
Query: 643 NVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYIXXXXXXXXXXXXX 822
NV GL IGL+YGLTYCYSLDL E VALKLDQKFPFSLMRRI LFKYI
Sbjct: 186 NVSGLLIGLSYGLTYCYSLDLSERVALKLDQKFPFSLMRRIPLFKYISGSSAERRAAQSR 245
Query: 823 XLNPVPGSYPTQSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASGLCY 1002
LNP PGSYPTQS HPHL P++PV QMQHASGQKLASWP PGHMPSLPPYQPASGLCY
Sbjct: 246 RLNPAPGSYPTQSCHPHLTPSYPVTQMQHASGQKLASWP---PGHMPSLPPYQPASGLCY 302
Query: 1003 VQNHFGTTPNSSGVYPASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVLIP 1179
VQNHFG PN+S VYPASAG S GVQPP+P++CPGTVYSGAL TP A GSKE S+V +P
Sbjct: 303 VQNHFGPNPNASSVYPASAGTSQGVQPPSPISCPGTVYSGALGTPGATGSKESSKVAMP 361
>ref|NP_796344.1| rhomboid domain-containing protein 3 [Mus musculus].
Length = 385
Score = 52.8 bits (125), Expect = 7e-07
Identities = 53/183 (28%), Positives = 79/183 (43%), Gaps = 1/183 (0%)
Frame = +1
Query: 166 LSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRLVTYIFVYENPVSLLCGAIIIWRF 345
L LL +GP L LAP L + WQV+RL+T+ + LL +++
Sbjct: 28 LWLLGAGPSL-----RLAPELL------MEPWQVHRLLTHALGHTALPGLLLSLLLLPTL 76
Query: 346 AGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFTPVAFAMLGVN 525
E +GTVR + + AL + ++ + + G G+ PV AML
Sbjct: 77 GWWQECHLGTVRFLHNSTVLALATGLLAVLLAGLGVSGAAG----GCGYMPVHLAMLAGQ 132
Query: 526 SVRARMRRALVFGMVVPSMLVPWLLLCASWLI-PQTSFLSNVCGLGIGLAYGLTYCYSLD 702
S + +P L+PWLLL + L+ + FL +CGL GLAY L+
Sbjct: 133 SHHPGWPQ-----RTLPPWLLPWLLLALTLLLSSEPPFLQLLCGLLTGLAYAAGAFQWLE 187
Query: 703 LPE 711
L E
Sbjct: 188 LSE 190
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: 50,742,000
Number of extensions: 1514173
Number of successful extensions: 10229
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 9670
Number of HSP's successfully gapped: 2
Length of query: 515
Length of database: 15,617,559
Length adjustment: 106
Effective length of query: 409
Effective length of database: 12,433,743
Effective search space: 5085400887
Effective search space used: 5085400887
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-001082
(1546 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_003124448.2| PREDICTED: rhomboid domain-containing protei... 614 e-176
Alignment gi|XP_003359196.1| PREDICTED: rhomboid domain-containing protei... 59 6e-09
Alignment gi|XP_003359197.1| PREDICTED: rhomboid domain-containing protei... 57 3e-08
>ref|XP_003124448.2| PREDICTED: rhomboid domain-containing protein 2-like [Sus scrofa].
Length = 460
Score = 614 bits (1584), Expect = e-176
Identities = 310/348 (89%), Positives = 310/348 (89%)
Frame = +1
Query: 136 VPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRLVTYIFVYENPVSL 315
VPSATFFTALLSLLVSGPRLFLLQ SLRSEALRNWQVYRLVTYIFVYENPVSL
Sbjct: 121 VPSATFFTALLSLLVSGPRLFLLQXXXXXXXXSLRSEALRNWQVYRLVTYIFVYENPVSL 180
Query: 316 LCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFT 495
LCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFT
Sbjct: 181 LCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFT 240
Query: 496 PVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSFLSNVCGLGIGLAY 675
PVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSFLSNVCGLGIGLAY
Sbjct: 241 PVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSFLSNVCGLGIGLAY 300
Query: 676 GLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYIXXXXXXXXXXXXXXLNPVPGSYPT 855
GLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYI LNPVPGSYPT
Sbjct: 301 GLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAERRAAHSRRLNPVPGSYPT 360
Query: 856 QSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASGLCYVQNHFGTTPNS 1035
QSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASGLCYVQNHFGTTPNS
Sbjct: 361 QSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMPSLPPYQPASGLCYVQNHFGTTPNS 420
Query: 1036 SGVYPASAGASLGVQPPAPLNCPGTVYSGALATPAAAGSKECSRVLIP 1179
SGVYPAS GTVYSGALATPAAAGSKECSRVLIP
Sbjct: 421 SGVYPAS--------XXXXXXXXGTVYSGALATPAAAGSKECSRVLIP 460
>ref|XP_003359196.1| PREDICTED: rhomboid domain-containing protein 3 isoform 1 [Sus
scrofa].
Length = 386
Score = 59.3 bits (142), Expect = 6e-09
Identities = 56/193 (29%), Positives = 86/193 (44%), Gaps = 2/193 (1%)
Frame = +1
Query: 139 PSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRN-WQVYRLVTYIFVYENPVSL 315
P+ +++L LL+S L+LL A L L E L + WQ +RL+T+ + SL
Sbjct: 12 PALPLASSILMLLISS--LWLLG---AGPSLVLAPELLLDPWQAHRLLTHALGHTALPSL 66
Query: 316 LCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFT 495
L +++ E +GT+R + + AL ++ + + L G+
Sbjct: 67 LLSLLLLTTLGWRQECHLGTLRFLHASTLLALACGLMAVLLAGLG----LSRAAGGCGYM 122
Query: 496 PVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLI-PQTSFLSNVCGLGIGLA 672
PV AML R R R +P L+PWLLL + L+ + FL CGL G+A
Sbjct: 123 PVHLAMLAGQCYRLRQPRG-----AMPPWLLPWLLLALTPLLSSEPPFLQLFCGLLAGVA 177
Query: 673 YGLTYCYSLDLPE 711
Y L+L E
Sbjct: 178 YAAGAFQWLELSE 190
>ref|XP_003359197.1| PREDICTED: rhomboid domain-containing protein 3 isoform 2 [Sus
scrofa].
Length = 365
Score = 57.0 bits (136), Expect = 3e-08
Identities = 54/183 (29%), Positives = 78/183 (42%), Gaps = 1/183 (0%)
Frame = +1
Query: 166 LSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQVYRLVTYIFVYENPVSLLCGAIIIWRF 345
L LL +GP L L AP L L WQ +RL+T+ + SLL +++
Sbjct: 7 LWLLGAGPSLVL-----APELL------LDPWQAHRLLTHALGHTALPSLLLSLLLLTTL 55
Query: 346 AGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAVSKLSKLGEVEDARGFTPVAFAMLGVN 525
E +GT+R + + AL ++ + + L G+ PV AML
Sbjct: 56 GWRQECHLGTLRFLHASTLLALACGLMAVLLAGLG----LSRAAGGCGYMPVHLAMLAGQ 111
Query: 526 SVRARMRRALVFGMVVPSMLVPWLLLCASWLI-PQTSFLSNVCGLGIGLAYGLTYCYSLD 702
R R R +P L+PWLLL + L+ + FL CGL G+AY L+
Sbjct: 112 CYRLRQPRG-----AMPPWLLPWLLLALTPLLSSEPPFLQLFCGLLAGVAYAAGAFQWLE 166
Query: 703 LPE 711
L E
Sbjct: 167 LSE 169
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: 38,348,779
Number of extensions: 1198771
Number of successful extensions: 8732
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 8158
Number of HSP's successfully gapped: 3
Length of query: 515
Length of database: 11,343,932
Length adjustment: 103
Effective length of query: 412
Effective length of database: 8,779,541
Effective search space: 3617170892
Effective search space used: 3617170892
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-001082
(1546 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL892833.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 813 0.0
>gb|GL892833.1| Sus scrofa unplaced genomic scaffold chrU_scaffold1659
Length = 73733
Score = 813 bits (410), Expect = 0.0
Identities = 410/410 (100%)
Strand = Plus / Plus
Query: 264 agtttacaggctggtgacctacatctttgtctacgagaaccccgtctccctgctctgcgg 323
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47458 agtttacaggctggtgacctacatctttgtctacgagaaccccgtctccctgctctgcgg 47517
Query: 324 cgctatcatcatctggcgctttgctggcaattttgagagaaccgtgggcacggtccgcca 383
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47518 cgctatcatcatctggcgctttgctggcaattttgagagaaccgtgggcacggtccgcca 47577
Query: 384 ctgcttcttcaccgtgatcttcgccctctgctctgccatcatcttcctgtcctttgaagc 443
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47578 ctgcttcttcaccgtgatcttcgccctctgctctgccatcatcttcctgtcctttgaagc 47637
Query: 444 tgtgtcgaagctgtcgaagctgggggaggtggaggacgccagaggcttcaccccggtggc 503
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47638 tgtgtcgaagctgtcgaagctgggggaggtggaggacgccagaggcttcaccccggtggc 47697
Query: 504 ttttgccatgctgggcgtcaactccgtccgcgctcggatgaggcgggccctggtgtttgg 563
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47698 ttttgccatgctgggcgtcaactccgtccgcgctcggatgaggcgggccctggtgtttgg 47757
Query: 564 catggtggtgccctcgatgctggtgccgtggctcctgctctgtgcctcctggctcattcc 623
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47758 catggtggtgccctcgatgctggtgccgtggctcctgctctgtgcctcctggctcattcc 47817
Query: 624 ccagacctctttcctcagcaacgtctgtggacttggaattgggctggcgt 673
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47818 ccagacctctttcctcagcaacgtctgtggacttggaattgggctggcgt 47867
Score = 731 bits (369), Expect = 0.0
Identities = 369/369 (100%)
Strand = Plus / Plus
Query: 1104 cggcacggtgtattccggggccctggccactccagcggccgccggctccaaggagtgctc 1163
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 54956 cggcacggtgtattccggggccctggccactccagcggccgccggctccaaggagtgctc 55015
Query: 1164 tagggtcctgatcccctgagacagagtttctagggaagtggtctcccgtctcagccttct 1223
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55016 tagggtcctgatcccctgagacagagtttctagggaagtggtctcccgtctcagccttct 55075
Query: 1224 gaggaaggtcccctctgagctccgattttctcgacagaaagttctttaccaaacacctcg 1283
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55076 gaggaaggtcccctctgagctccgattttctcgacagaaagttctttaccaaacacctcg 55135
Query: 1284 atgtgcaggctctgcgttgagtcttttgatccgtgtccctatttcagtctcatttgtcct 1343
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55136 atgtgcaggctctgcgttgagtcttttgatccgtgtccctatttcagtctcatttgtcct 55195
Query: 1344 catgacagctctgtgaagtacagcttgtcgtccccagttcacagatgcagacagcgacgc 1403
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55196 catgacagctctgtgaagtacagcttgtcgtccccagttcacagatgcagacagcgacgc 55255
Query: 1404 gccctgtgacgacacgaggtcgcatggctcagtggtggcgctgcccccgcagctcccgca 1463
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55256 gccctgtgacgacacgaggtcgcatggctcagtggtggcgctgcccccgcagctcccgca 55315
Query: 1464 caggagggc 1472
|||||||||
Sbjct: 55316 caggagggc 55324
Score = 468 bits (236), Expect = e-129
Identities = 236/236 (100%)
Strand = Plus / Plus
Query: 823 aggctgaaccctgtgcccggctcctaccccacacagagcggccaccctcacctgcccccg 882
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 54620 aggctgaaccctgtgcccggctcctaccccacacagagcggccaccctcacctgcccccg 54679
Query: 883 aaccaccctgtcgcccagatgcagcatgccagtggccagaaactcgcatcctggccagcc 942
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 54680 aaccaccctgtcgcccagatgcagcatgccagtggccagaaactcgcatcctggccagcc 54739
Query: 943 tgcgctcctgggcacatgcccagcctgcctccataccagcctgcctccggcctgtgctac 1002
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 54740 tgcgctcctgggcacatgcccagcctgcctccataccagcctgcctccggcctgtgctac 54799
Query: 1003 gtgcaaaaccattttggcacaacccctaactcctccggtgtctacccggcttccgc 1058
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 54800 gtgcaaaaccattttggcacaacccctaactcctccggtgtctacccggcttccgc 54855
Score = 301 bits (152), Expect = 6e-79
Identities = 152/152 (100%)
Strand = Plus / Plus
Query: 674 acggcctcacgtactgctactcccttgacctgccggagcacgtggccctgaagctcgacc 733
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51614 acggcctcacgtactgctactcccttgacctgccggagcacgtggccctgaagctcgacc 51673
Query: 734 agaagttccccttcagcctgatgaggaggatttcgctgttcaagtacatctcaggctctt 793
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51674 agaagttccccttcagcctgatgaggaggatttcgctgttcaagtacatctcaggctctt 51733
Query: 794 cggccgagagaagggcggcccacagccggagg 825
||||||||||||||||||||||||||||||||
Sbjct: 51734 cggccgagagaagggcggcccacagccggagg 51765
Score = 151 bits (76), Expect = 1e-33
Identities = 76/76 (100%)
Strand = Plus / Plus
Query: 135 ggtgccatccgccaccttcttcaccgcgctgctctcgctgctggtgtccgggccccgcct 194
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 45084 ggtgccatccgccaccttcttcaccgcgctgctctcgctgctggtgtccgggccccgcct 45143
Query: 195 gttcctgctgcagccg 210
||||||||||||||||
Sbjct: 45144 gttcctgctgcagccg 45159
Score = 69.9 bits (35), Expect = 4e-09
Identities = 35/35 (100%)
Strand = Plus / Plus
Query: 231 ctcgctgcggtccgaggccctgcgcaactggcaag 265
|||||||||||||||||||||||||||||||||||
Sbjct: 45260 ctcgctgcggtccgaggccctgcgcaactggcaag 45294
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: 35,296,461
Number of extensions: 209
Number of successful extensions: 209
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 209
Number of HSP's successfully gapped: 6
Length of query: 1546
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1525
Effective length of database: 2,808,413,156
Effective search space: 4282830062900
Effective search space used: 4282830062900
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)