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-013538
(1835 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_001095564.1| COP9 signalosome complex subunit 1 [Bos taur... 908 0.0
Alignment gi|NP_001029821.1| 26S proteasome non-ATPase regulatory subunit... 93 7e-19
>ref|NP_001095564.1| COP9 signalosome complex subunit 1 [Bos taurus].
Length = 487
Score = 908 bits (2347), Expect = 0.0
Identities = 459/487 (94%), Positives = 460/487 (94%)
Frame = +1
Query: 31 MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERL 210
MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERL
Sbjct: 1 MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERL 60
Query: 211 QFIADHCPPLRAEALKMALSFVQRTFNVDMYEEIHRKLSEATRELQNTPDAIPESGVEPP 390
QFIADHCPPLR EALKMALSFVQRTFNVDMYEEIHRKLSEA RELQN PDAIPESGVEPP
Sbjct: 61 QFIADHCPPLRVEALKMALSFVQRTFNVDMYEEIHRKLSEAARELQNAPDAIPESGVEPP 120
Query: 391 PLDTAWVXXXXXXXXXXXXXXXXXXXNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKC 570
PLDTAWV NYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKC
Sbjct: 121 PLDTAWVEATRKKALLKLEKLDTDLKNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKC 180
Query: 571 YSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDTQTQA 750
YSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDTQTQA
Sbjct: 181 YSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDTQTQA 240
Query: 751 ILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGLCALATFDRQ 930
ILTKLKCAAGLAELAARKYKQAAKCFLLA+FDHCDFPELLSPSNVAVYGGLCALATFDRQ
Sbjct: 241 ILTKLKCAAGLAELAARKYKQAAKCFLLASFDHCDFPELLSPSNVAVYGGLCALATFDRQ 300
Query: 931 ELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRT 1110
ELQRNVI FKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRT
Sbjct: 301 ELQRNVISSSSFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRT 360
Query: 1111 LYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSHSKIL 1290
LYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSHSKIL
Sbjct: 361 LYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSHSKIL 420
Query: 1291 YARDVDQRSTTFEKSLLMGKEFQRRVKAMILRAAVLRNQIHVKSPPREGSQGELTPANSQ 1470
YARDVDQRSTTFEKSLLMGKEFQRR KAMILRAAVLRNQIHVKSPPREGSQGELTPANSQ
Sbjct: 421 YARDVDQRSTTFEKSLLMGKEFQRRAKAMILRAAVLRNQIHVKSPPREGSQGELTPANSQ 480
Query: 1471 SRMSTNM 1491
SRMSTNM
Sbjct: 481 SRMSTNM 487
>ref|NP_001029821.1| 26S proteasome non-ATPase regulatory subunit 6 [Bos taurus].
Length = 389
Score = 93.2 bits (230), Expect = 7e-19
Identities = 66/278 (23%), Positives = 125/278 (44%)
Frame = +1
Query: 544 GDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQR 723
GD AL + R D + H +++ ++++ ++ + + KA+S + E+
Sbjct: 115 GDKEGALTAFRRTYDKTVALGHRLDIVFYLLRIGLFYMDNDLITRNTEKAKS---LIEEG 171
Query: 724 GERDTQTQAILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGL 903
G+ D + +LK GL +A R +KQAA+ FL + EL+ Y
Sb
Animal-Genome cDNA 20110601C-013538
Animal-Genome cDNA 20110601C-013538
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-013538
(1835 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_540496.2| PREDICTED: similar to G protein pathway suppres... 817 0.0
Alignment gi|XP_541816.2| PREDICTED: similar to 26S proteasome non-ATPase... 93 1e-18
>ref|XP_540496.2| PREDICTED: similar to G protein pathway suppressor 1 [Canis
familiaris].
Length = 449
Score = 817 bits (2111), Expect = 0.0
Identities = 414/445 (93%), Positives = 416/445 (93%)
Frame = +1
Query: 157 DLEQYAASYSGLMRIERLQFIADHCPPLRAEALKMALSFVQRTFNVDMYEEIHRKLSEAT 336
DLEQYAASYSGLMRIERLQFIADHCPPLR EALKMALSFVQRTFNVDMYEEIHRKLSEAT
Sbjct: 5 DLEQYAASYSGLMRIERLQFIADHCPPLRVEALKMALSFVQRTFNVDMYEEIHRKLSEAT 64
Query: 337 RELQNTPDAIPESGVEPPPLDTAWVXXXXXXXXXXXXXXXXXXXNYKGNSIKESIRRGHD 516
RELQN PD IPESGVEPPPLDTAWV NYKGNSIKESIRRGHD
Sbjct: 65 RELQNAPDTIPESGVEPPPLDTAWVEATRKKALLKLEKLDTDLKNYKGNSIKESIRRGHD 124
Query: 517 DLGDHYLDCGDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAE 696
DLGDHYLDCGDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAE
Sbjct: 125 DLGDHYLDCGDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAE 184
Query: 697 STPEIAEQRGERDTQTQAILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSP 876
STPEIAEQRGERD+QTQAILTKLKCAAGLAELAARKYKQAAKCFLLA+FDHCDFPELLSP
Sbjct: 185 STPEIAEQRGERDSQTQAILTKLKCAAGLAELAARKYKQAAKCFLLASFDHCDFPELLSP 244
Query: 877 SNVAVYGGLCALATFDRQELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLD 1056
SNVAVYGGLCALATFDRQELQRNVI FKLFLELEPQVRDIIFKFYESKYASCLKMLD
Sbjct: 245 SNVAVYGGLCALATFDRQELQRNVISSSSFKLFLELEPQVRDIIFKFYESKYASCLKMLD 304
Query: 1057 EMKDNLLLDMYLAPHVRTLYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQ 1236
EMKDNLLLDMYLAPHVRTLYTQIRNRALIQYFSPYVSADM KMA AFNTTVAALEDELTQ
Sbjct: 305 EMKDNLLLDMYLAPHVRTLYTQIRNRALIQYFSPYVSADMHKMAAAFNTTVAALEDELTQ 364
Query: 1237 LILEGLINARIDSHSKILYARDVDQRSTTFEKSLLMGKEFQRRVKAMILRAAVLRNQIHV 1416
LILEGLINARIDSHSKILYARDVDQRSTTFEKSLLMGKEFQRR KAMILRAAVLRNQIHV
Sbjct: 365 LILEGLINARIDSHSKILYARDVDQRSTTFEKSLLMGKEFQRRAKAMILRAAVLRNQIHV 424
Query: 1417 KSPPREGSQGELTPANSQSRMSTNM 1491
KSPPREGSQGELTPANSQSRMSTNM
Sbjct: 425 KSPPREGSQGELTPANSQSRMSTNM 449
>ref|XP_541816.2| PREDICTED: similar to 26S proteasome non-ATPase regulatory subunit 6
(26S proteasome regulatory subunit S10) (p42A)
(Proteasome regulatory particle subunit p44S10)
(Phosphonoformate immuno-associated protein 4) (Breast
cancer associated protein SGA-113M)... isoform [Canis
familiaris].
Length = 389
Score = 92.8 bits (229), Expect = 1e-18
Identities = 66/278 (23%), Positives = 125/278 (44%)
Frame = +1
Query: 544 GDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQR 723
GD AL + + D + H +++ ++++ ++ + + KA+S + E+
Sbjct: 115 GDKDGALTAFRKTYDKTVALGHRLDIVFYLLRIGLFYMDNDLITRNTEKAKS---LIEEG 171
Query: 724 GERDTQTQAILjct: 172 GDWDRRN-----RLKVYQGLYCVAIRDFKQAAELFLDTVSTFTSY-ELMDYKTFVTYTVY 225
Query: 904 CALATFDRQELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLD 1083
++ +R +L+ VI L P VR +F YE +Y+ + L ++ + D
Sbjct: 226 VSMIALERPDLREKVIKGAEILEVLHSLPAVRQYLFSLYECRYSVFFQSLAIVEQEMKKD 285
Query: 1084 MYLAPHVRTLYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINA 1263
APH R ++R A Q Y S + MA AF V ++ EL++ I G ++
Sbjct: 286 WLFAPHYRYYVREMRIHAYSQLLESYRSLTLGYMAEAFGVGVEFIDQELSRFIAAGRLHC 345
Query: 1264 RIDSHSKILYARDVDQRSTTFEKSLLMGKEFQRRVKAM 1377
+ID ++++ D ++ +++++ G RV+ +
Sbjct: 346 KIDKVNEVVETNRPDSKNWQYQETIKKGGLLLNRVQKL 383
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: 58,834,279
Number of extensions: 1571669
Number of successful extensions: 10256
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 10105
Number of HSP's successfully gapped: 2
Length of query: 611
Length of database: 17,681,374
Length adjustment: 108
Effective length of query: 503
Effective length of database: 14,107,870
Effective search space: 7096258610
Effective search space used: 7096258610
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)
TKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGL 903
G+ D + +LK GL +A R +KQAA+ FL + EL+ Y
Sbjct: 172 GDWDRRN-----RLKVYQGLYCVAIRDFKQAAELFLDTVSTFTSY-ELMDYKTFVTYTVY 225
Query: 904 CALATFDRQELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLD 1083
++ +R +L+ VI L P VR +F YE +Y+ + L ++ + D
Sbjct: 226 VSMIALERPDLREKVIKGAEILEVLHSLPAVRQYLFSLYECRYSVFFQSLAIVEQEMKKD 285
Query: 1084 MYLAPHVRTLYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINA 1263
APH R ++R A Q Y S + MA AF V ++ EL++ I G ++
Sbjct: 286 WLFAPHYRYYVREMRIHAYSQLLESYRSLTLGYMAEAFGVGVEFIDQELSRFIAAGRLHC 345
Query: 1264 RIDSHSKILYARDVDQRSTTFEKSLLMGKEFQRRVKAM 1377
+ID ++I+ D ++ +++++ G RV+ +
Sbjct: 346 KIDKVNEIVETNRPDSKNWQYQETIKKGDLLLNRVQKL 383
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: 61,445,414
Number of extensions: 1607063
Number of successful extensions: 11180
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 11024
Number of HSP's successfully gapped: 2
Length of query: 611
Length of database: 18,874,504
Length adjustment: 109
Effective length of query: 502
Effective length of database: 15,240,880
Effective search space: 7650921760
Effective search space used: 7650921760
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-013538
(1835 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_003132344.2| PREDICTED: 26S proteasome non-ATPase regulat... 89 6e-18
>ref|XP_003132344.2| PREDICTED: 26S proteasome non-ATPase regulatory subunit 6 [Sus
scrofa].
Length = 419
Score = 89.4 bits (220), Expect = 6e-18
Identities = 64/273 (23%), Positives = 123/273 (45%)
Frame = +1
Query: 559 ALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDT 738
AL + + D + H +++ ++++ ++ + + KA+S + E+ G+ D
Sbjct: 150 ALTAFRKTYDKTVALGHRLDIVFYLLRIGLFYMDNDLITRNTEKAKS---LIEEGGDWDR 206
Query: 739 QTQAILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGLCALAT 918
+ +LK GL +A R +KQAA+ FL + EL+ Y ++
Sbjct: 207 RN-----RLKVYQGLYCVAIRDFKQAAELFLDTVSTFTSY-ELMDYKTFVTYTVYVSMIA 260
Query: 919 FDRQELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAP 1098
+R +L+ VI L P VR +F YE +Y+ + L ++ + D AP
Sbjct: 261 LERPDLREKVIKGAEILEVLHSLPAVRQYLFSLYECRYSVFFQSLAVVEQEMKKDWLFAP 320
Query: 1099 HVRTLYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSH 1278
H R ++R A Q Y S + MA AF V ++ EL++ I G ++ +ID
Sbjct: 321 HYRYYVREMRIHAYSQLLESYRSLTLGYMAEAFGVGVEFIDQELSRFIAAGRLHCKIDKV 380
Query: 1279 SKILYARDVDQRSTTFEKSLLMGKEFQRRVKAM 1377
++I+ D ++ +++++ G RV+ +
Sbjct: 381 NEIVETNRPDSKNWQYQETIKKGDLLLNRVQKL 413
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: 38,252,686
Number of extensions: 1045931
Number of successful extensions: 6663
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 6525
Number of HSP's successfully gapped: 1
Length of query: 611
Length of database: 11,343,932
Length adjustment: 105
Effective length of query: 506
Effective length of database: 8,729,747
Effective search space: 4417251982
Effective search space used: 4417251982
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 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-013538
(1835 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_001171345.1| COP9 signalosome complex subunit 1 isoform 2... 902 0.0
Alignment gi|NP_663345.2| COP9 signalosome complex subunit 1 isoform 1 [M... 880 0.0
Alignment gi|NP_079826.2| 26S proteasome non-ATPase regulatory subunit 6 ... 93 8e-19
>ref|NP_001171345.1| COP9 signalosome complex subunit 1 isoform 2 [Mus musculus].
Length = 487
Score = 902 bits (2330), Expect = 0.0
Identities = 456/487 (93%), Positives = 458/487 (94%)
Frame = +1
Query: 31 MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERL 210
MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERL
Sbjct: 1 MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERL 60
Query: 211 QFIADHCPPLRAEALKMALSFVQRTFNVDMYEEIHRKLSEATRELQNTPDAIPESGVEPP 390
QFIAD CPPLR EALKMALSFVQRTFNVDMYEEIHRKLSEATRELQN PDAIPESGVEPP
Sbjct: 61 QFIADRCPPLRVEALKMALSFVQRTFNVDMYEEIHRKLSEATRELQNAPDAIPESGVEPP 120
Query: 391 PLDTAWVXXXXXXXXXXXXXXXXXXXNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKC 570
PLDTAWV NYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKC
Sbjct: 121 PLDTAWVEATRKKALLKLEKLDTDLKNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKC 180
Query: 571 YSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDTQTQA 750
YSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERD+QTQA
Sbjct: 181 YSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDSQTQA 240
Query: 751 ILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGLCALATFDRQ 930
ILTKLKCAAGLAELAARKYKQAAKCFLLA+FDHCDFPELLSPSNVAVYGGLCALATFDRQ
Sbjct: 241 ILTKLKCAAGLAELAARKYKQAAKCFLLASFDHCDFPELLSPSNVAVYGGLCALATFDRQ 300
Query: 931 ELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRT 1110
ELQRNVI FKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRT
Sbjct: 301 ELQRNVISSSSFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRT 360
Query: 1111 LYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSHSKIL 1290
LYTQIRNRALIQYFSPYVSADM KMA AFNTTVAALEDELTQLILEGLINARIDSHSKIL
Sbjct: 361 LYTQIRNRALIQYFSPYVSADMHKMAAAFNTTVAALEDELTQLILEGLINARIDSHSKIL 420
Query: 1291 YARDVDQRSTTFEKSLLMGKEFQRRVKAMILRAAVLRNQIHVKSPPREGSQGELTPANSQ 1470
YARDVDQRSTTFEKSLLMGKEFQRR KAMILRAAVLRNQIHVKSPPREGSQGELTPANSQ
Sbjct: 421 YARDVDQRSTTFEKSLLMGKEFQRRAKAMILRAAVLRNQIHVKSPPREGSQGELTPANSQ 480
Query: 1471 SRMSTNM 1491
SRMSTNM
Sbjct: 481 SRMSTNM 487
>ref|NP_663345.2| COP9 signalosome complex subunit 1 isoform 1 [Mus musculus].
Length = 526
Score = 880 bits (2275), Expect = 0.0
Identities = 445/477 (93%), Positives = 448/477 (93%)
Frame = +1
Query: 61 QGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERLQFIADHCPPL 240
+GAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERLQFIAD CPPL
Sbjct: 50 EGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERLQFIADRCPPL 109
Query: 241 RAEALKMALSFVQRTFNVDMYEEIHRKLSEATRELQNTPDAIPESGVEPPPLDTAWVXXX 420
R EALKMALSFVQRTFNVDMYEEIHRKLSEATRELQN PDAIPESGVEPPPLDTAWV
Sbjct: 110 RVEALKMALSFVQRTFNVDMYEEIHRKLSEATRELQNAPDAIPESGVEPPPLDTAWVEAT 169
Query: 421 XXXXXXXXXXXXXXXXNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTS 600
NYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTS
Sbjct: 170 RKKALLKLEKLDTDLKNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTS 229
Query: 601 AKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDTQTQAILTKLKCAAG 780
AKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERD+QTQAILTKLKCAAG
Sbjct: 230 AKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDSQTQAILTKLKCAAG 289
Query: 781 LAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGLCALATFDRQELQRNVIXXX 960
LAELAARKYKQAAKCFLLA+FDHCDFPELLSPSNVAVYGGLCALATFDRQELQRNVI
Sbjct: 290 LAELAARKYKQAAKCFLLASFDHCDFPELLSPSNVAVYGGLCALATFDRQELQRNVISSS 349
Query: 961 XFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRTLYTQIRNRAL 1140
FKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRTLYTQIRNRAL
Sbjct: 350 SFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRTLYTQIRNRAL 409
Query: 1141 IQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSHSKILYARDVDQRST 1320
IQYFSPYVSADM KMA AFNTTVAALEDELTQLILEGLINARIDSHSKILYARDVDQRST
Sbjct: 410 IQYFSPYVSADMHKMAAAFNTTVAALEDELTQLILEGLINARIDSHSKILYARDVDQRST 469
Query: 1321 TFEKSLLMGKEFQRRVKAMILRAAVLRNQIHVKSPPREGSQGELTPANSQSRMSTNM 1491
TFEKSLLMGKEFQRR KAMILRAAVLRNQIHVKSPPREGSQGELTPANSQSRMSTNM
Sbjct: 470 TFEKSLLMGKEFQRRAKAMILRAAVLRNQIHVKSPPREGSQGELTPANSQSRMSTNM 526
>ref|NP_079826.2| 26S proteasome non-ATPase regulatory subunit 6 [Mus musculus].
Length = 389
Score = 92.8 bits (229), Expect = 8e-19
Identities = 66/284 (23%), Positives = 127/284 (44%)
Frame = +1
Query: 526 DHYLDCGDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTP 705
++ GD AL + + D + H +++ ++++ ++ + + KA+S
Sbjct: 109 EYLCQIGDKEGALTAFRKTYDKTVALGHRLDIVFYLLRIGLFYMDNDLITRNTEKAKS-- 166
Query: 706 EIAEQRGERDTQTQAILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNV 885
+ E+ G+ D + +LK GL +A R +KQAA+ FL + EL+
Sbjct: 167 -LIEEGGDWDRRN-----RLKVYQGLYCVAIRDFKQAAELFLDTVSTFTSY-ELMDYKTF 219
Query: 886 AVYGGLCALATFDRQELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMK 1065
Y ++ +R +L+ VI L P VR +F YE +Y+ + L ++
Sbjct: 220 VTYTVYVSMIALERPDLREKVIKGAEILEVLHSLPAVRQYLFSLYECRYSVFFQSLAIVE 279
Query: 1066 DNLLLDMYLAPHVRTLYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLIL 1245
+ D APH R ++R A Q Y S + MA AF V ++ EL++ I
Sbjct: 280 QEMKKDWLFAPHYRYYVREMRIHAYSQLLESYRSLTLGYMAEAFGVGVDFIDQELSRFIA 339
Query: 1246 EGLINARIDSHSKILYARDVDQRSTTFEKSLLMGKEFQRRVKAM 1377
G ++ +ID ++I+ D ++ +++++ G RV+ +
Sbjct: 340 AGRLHCKIDKVNEIVETNRPDSKNWQYQETIKKGDLLLNRVQKL 383
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: 50,186,494
Number of extensions: 1269107
Number of successful extensions: 8118
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 7664
Number of HSP's successfully gapped: 3
Length of query: 611
Length of database: 15,617,559
Length adjustment: 107
Effective length of query: 504
Effective length of database: 12,403,707
Effective search space: 6251468328
Effective search space used: 6251468328
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-013538
(1835 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_004118.3| COP9 signalosome complex subunit 1 isoform 2 [H... 884 0.0
Alignment gi|NP_997657.1| COP9 signalosome complex subunit 1 isoform 1 [H... 868 0.0
Alignment gi|NP_055629.1| 26S proteasome non-ATPase regulatory subunit 6 ... 93 7e-19
>ref|NP_004118.3| COP9 signalosome complex subunit 1 isoform 2 [Homo sapiens].
Length = 491
Score = 884 bits (2284), Expect = 0.0
Identities = 448/491 (91%), Positives = 456/491 (92%), Gaps = 4/491 (0%)
Frame = +1
Query: 31 MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERL 210
MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENP+LDLEQYAASYSGLMRIERL
Sbjct: 1 MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPSLDLEQYAASYSGLMRIERL 60
Query: 211 QFIADHCPPLRAEALKMALSFVQRTFNVDMYEEIHRKLSEATR----ELQNTPDAIPESG 378
QFIADHCP LR EALKMALSFVQRTFNVDMYEEIHRKLSEATR ELQN PDAIPESG
Sbjct: 61 QFIADHCPTLRVEALKMALSFVQRTFNVDMYEEIHRKLSEATRSSLRELQNAPDAIPESG 120
Query: 379 VEPPPLDTAWVXXXXXXXXXXXXXXXXXXXNYKGNSIKESIRRGHDDLGDHYLDCGDLSN 558
VEPP LDTAWV NYKGNSIKESIRRGHDDLGDHYLDCGDLSN
Sbjct: 121 VEPPALDTAWVEATRKKALLKLEKLDTDLKNYKGNSIKESIRRGHDDLGDHYLDCGDLSN 180
Query: 559 ALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDT 738
ALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERD+
Sbjct: 181 ALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDS 240
Query: 739 QTQAILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGLCALAT 918
QTQAILTKLKCAAGLAELAARKYKQAAKC LLA+FDHCDFPELLSPSNVA+YGGLCALAT
Sbjct: 241 QTQAILTKLKCAAGLAELAARKYKQAAKCLLLASFDHCDFPELLSPSNVAIYGGLCALAT 300
Query: 919 FDRQELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAP 1098
FDRQELQRNVI FKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAP
Sbjct: 301 FDRQELQRNVISSSSFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAP 360
Query: 1099 HVRTLYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSH 1278
HVRTLYTQIRNRALIQYFSPYVSADM +MA AFNTTVAALEDELTQLILEGLI+AR+DSH
Sbjct: 361 HVRTLYTQIRNRALIQYFSPYVSADMHRMAAAFNTTVAALEDELTQLILEGLISARVDSH 420
Query: 1279 SKILYARDVDQRSTTFEKSLLMGKEFQRRVKAMILRAAVLRNQIHVKSPPREGSQGELTP 1458
SKILYARDVDQRSTTFEKSLLMGKEFQRR KAM+LRAAVLRNQIHVKSPPREGSQGELTP
Sbjct: 421 SKILYARDVDQRSTTFEKSLLMGKEFQRRAKAMMLRAAVLRNQIHVKSPPREGSQGELTP 480
Query: 1459 ANSQSRMSTNM 1491
ANSQSRMSTNM
Sbjct: 481 ANSQSRMSTNM 491
>ref|NP_997657.1| COP9 signalosome complex subunit 1 isoform 1 [Homo sapiens].
Length = 527
Score = 868 bits (2244), Expect = 0.0
Identities = 437/477 (91%), Positives = 446/477 (93%)
Frame = +1
Query: 61 QGAVEPMQIDVDPQEDPQNAPDVNYVVENPTLDLEQYAASYSGLMRIERLQFIADHCPPL 240
+GAVEPMQIDVDPQEDPQNAPDVNYVVENP+LDLEQYAASYSGLMRIERLQFIADHCP L
Sbjct: 51 EGAVEPMQIDVDPQEDPQNAPDVNYVVENPSLDLEQYAASYSGLMRIERLQFIADHCPTL 110
Query: 241 RAEALKMALSFVQRTFNVDMYEEIHRKLSEATRELQNTPDAIPESGVEPPPLDTAWVXXX 420
R EALKMALSFVQRTFNVDMYEEIHRKLSEATRELQN PDAIPESGVEPP LDTAWV
Sbjct: 111 RVEALKMALSFVQRTFNVDMYEEIHRKLSEATRELQNAPDAIPESGVEPPALDTAWVEAT 170
Query: 421 XXXXXXXXXXXXXXXXNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTS 600
NYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTS
Sbjct: 171 RKKALLKLEKLDTDLKNYKGNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTS 230
Query: 601 AKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDTQTQAILTKLKCAAG 780
AKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERD+QTQAILTKLKCAAG
Sbjct: 231 AKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDSQTQAILTKLKCAAG 290
Query: 781 LAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGLCALATFDRQELQRNVIXXX 960
LAELAARKYKQAAKC LLA+FDHCDFPELLSPSNVA+YGGLCALATFDRQELQRNVI
Sbjct: 291 LAELAARKYKQAAKCLLLASFDHCDFPELLSPSNVAIYGGLCALATFDRQELQRNVISSS 350
Query: 961 XFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRTLYTQIRNRAL 1140
FKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRTLYTQIRNRAL
Sbjct: 351 SFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAPHVRTLYTQIRNRAL 410
Query: 1141 IQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINARIDSHSKILYARDVDQRST 1320
IQYFSPYVSADM +MA AFNTTVAALEDELTQLILEGLI+AR+DSHSKILYARDVDQRST
Sbjct: 411 IQYFSPYVSADMHRMAAAFNTTVAALEDELTQLILEGLISARVDSHSKILYARDVDQRST 470
Query: 1321 TFEKSLLMGKEFQRRVKAMILRAAVLRNQIHVKSPPREGSQGELTPANSQSRMSTNM 1491
TFEKSLLMGKEFQRR KAM+LRAAVLRNQIHVKSPPREGSQGELTPANSQSRMSTNM
Sbjct: 471 TFEKSLLMGKEFQRRAKAMMLRAAVLRNQIHVKSPPREGSQGELTPANSQSRMSTNM 527
>ref|NP_055629.1| 26S proteasome non-ATPase regulatory subunit 6 [Homo sapiens].
Length = 389
Score = 93.2 bits (230), Expect = 7e-19
Identities = 66/278 (23%), Positives = 125/278 (44%)
Frame = +1
Query: 544 GDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQR 723
GD AL + + D + H +++ ++++ ++ + + KA+S + E+
Sbjct: 115 GDKEGALTAFRKTYDKTVALGHRLDIVFYLLRIGLFYMDNDLITRNTEKAKS---LIEEG 171
Query: 724 GERDTQTQAILTKLKCAAGLAELAARKYKQAAKCFLLAAFDHCDFPELLSPSNVAVYGGL 903
G+ D + +LK GL +A R +KQAA+ FL + EL+ Y
Sbjct: 172 GDWDRRN-----RLKVYQGLYCVAIRDFKQAAELFLDTVSTFTSY-ELMDYKTFVTYTVY 225
Query: 904 CALATFDRQELQRNVIXXXXFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLD 1083
++ +R +L+ VI L P VR +F YE +Y+ + L ++ + D
Sbjct: 226 VSMIALERPDLREKVIKGAEILEVLHSLPAVRQYLFSLYECRYSVFFQSLAVVEQEMKKD 285
Query: 1084 MYLAPHVRTLYTQIRNRALIQYFSPYVSADMRKMATAFNTTVAALEDELTQLILEGLINA 1263
APH R ++R A Q Y S + MA AF V ++ EL++ I G ++
Sbjct: 286 WLFAPHYRYYVREMRIHAYSQLLESYRSLTLGYMAEAFGVGVEFIDQELSRFIAAGRLHC 345
Query: 1264 RIDSHSKILYARDVDQRSTTFEKSLLMGKEFQRRVKAM 1377
+ID ++I+ D ++ +++++ G RV+ +
Sbjct: 346 KIDKVNEIVETNRPDSKNWQYQETIKKGDLLLNRVQKL 383
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: 59,815,179
Number of extensions: 1546879
Number of successful extensions: 9853
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 9641
Number of HSP's successfully gapped: 3
Length of query: 611
Length of database: 18,297,164
Length adjustment: 108
Effective length of query: 503
Effective length of database: 14,737,052
Effective search space: 7412737156
Effective search space used: 7412737156
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 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-013538
(1835 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|GL896279.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 198 8e-48
>gb|GL896279.1| Sus scrofa unplaced genomic scaffold chrU_scaffold635
Length = 5651
Score = 198 bits (100), Expect = 8e-48
Identities = 100/100 (100%)
Strand = Plus / Minus
Query: 58 ttgcagggggcggtggagcccatgcagattgacgtggatccccaggaggacccgcagaac 117
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5461 ttgcagggggcggtggagcccatgcagattgacgtggatccccaggaggacccgcagaac 5402
Query: 118 gcacccgatgtcaactatgtcgtggagaaccccaccctgg 157
||||||||||||||||||||||||||||||||||||||||
Sbjct: 5401 gcacccgatgtcaactatgtcgtggagaaccccaccctgg 5362
Score = 127 bits (64), Expect = 2e-26
Identities = 64/64 (100%)
Strand = Plus / Minus
Query: 716 agcagcgtggggagcgtgacacccagactcaggccatcctcaccaagctcaagtgtgccg 775
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4638 agcagcgtggggagcgtgacacccagactcaggccatcctcaccaagctcaagtgtgccg 4579
Query: 776 cagg 779
||||
Sbjct: 4578 cagg 4575
Score = 107 bits (54), Expect = 2e-20
Identities = 54/54 (100%)
Strand = Plus / Minus
Query: 811 caggctgccaagtgcttcctcctggccgccttcgatcactgcgacttccccgag 864
||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4043 caggctgccaagtgcttcctcctggccgccttcgatcactgcgacttccccgag 3990
Score = 89.7 bits (45), Expect = 5e-15
Identities = 45/45 (100%)
Strand = Plus / Minus
Query: 1575 tgcctgtggaggtggtgcctggagcccacgtgccggatgatgcca 1619
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3867 tgcctgtggaggtggtgcctggagcccacgtgccggatgatgcca 3823
Score = 83.8 bits (42), Expect = 3e-13
Identities = 52/54 (96%), Gaps = 1/54 (1%)
Strand = Plus / Minus
Query: 1748 tgtcgtttggggtcgcagccttgttgaatctgag-tcattaaaggggagcctga 1800
|||||||||||||||||||||||||||||||||| ||||||||||| |||||||
Sbjct: 3660 tgtcgtttggggtcgcagccttgttgaatctgagttcattaaagggcagcctga 3607
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: 37,349,491
Number of extensions: 225
Number of successful extensions: 225
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 225
Number of HSP's successfully gapped: 5
Length of query: 1835
Length of database: 2,808,509,378
Length adjustment: 22
Effective length of query: 1813
Effective length of database: 2,808,408,574
Effective search space: 5091644744662
Effective search space used: 5091644744662
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)