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-002771
(981 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_001029722.1| charged multivesicular body protein 2a [Bos ... 297 1e-80
Alignment gi|NP_001030549.1| charged multivesicular body protein 2b [Bos ... 85 1e-16
Alignment gi|NP_001014904.1| charged multivesicular body protein 1b [Bos ... 71 2e-12
Alignment gi|NP_001030223.2| charged multivesicular body protein 3 [Bos t... 64 3e-10
Alignment gi|NP_001178189.1| chromatin modifying protein 1A-like [Bos tau... 59 7e-09
>ref|NP_001029722.1| charged multivesicular body protein 2a [Bos taurus].
Length = 222
Score = 297 bits (760), Expect = 1e-80
Identities = 167/222 (75%), Positives = 167/222 (75%)
Frame = +2
Query: 188 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVR 367
MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQE QGQMDAVR
Sbjct: 1 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEKKIIADIKKMAKQGQMDAVR 60
Query: 368 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 547
IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP
Sbjct: 61 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 120
Query: 548 QIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELS 727
QIQKIMMEFERQAEIMDMKEEMMN VVAQVLDELGLSLTDELS
Sbjct: 121 QIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEDDEEESDAVVAQVLDELGLSLTDELS 180
Query: 728 NLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
NLPSTGGSL RLKNLRRD
Sbjct: 181 NLPSTGGSLSVAAGGKKAEATASALVDADADLEERLKNLRRD 222
>ref|NP_001030549.1| charged multivesicular body protein 2b [Bos taurus].
Length = 213
Score = 84.7 bits (208), Expect = 1e-16
Identities = 47/183 (25%), Positives = 89/183 (48%)
Frame = +2
Query: 206 RRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDL 385
++KT ++++++ R L R + R+R LE QE G +A R++AK L
Sbjct: 6 KKKTVDDVIKEQNRELRGTQRAIIRDRAALEKQEKQLELEIKKMAKIGNKEACRVLAKQL 65
Query: 386 VRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIM 565
V R+ + + + + ++S + + + S MA AM K M +N+++ + + M
Sbjct: 66 VHLRKQKTRTFAVSSKVTSMSTQTKVMNSQMKMAGAMSTTAKTMQAVNKKMDPQKTLQTM 125
Query: 566 MEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLPSTG 745
F+++ M+M EEM+N +V QVLDE+G+ ++ +++ PS
Sbjct: 126 QNFQKENMKMEMTEEMINDTLDDIFDGSDDEEESQDIVNQVLDEIGIEISGKMAKAPSAA 185
Query: 746 GSL 754
SL
Sbjct: 186 RSL 188
>ref|NP_001014904.1| charged multivesicular body protein 1b [Bos taurus].
Length = 199
Score = 70.9 bits (172), Expect = 2e-12
Identities = 41/158 (25%), Positives = 74/158 (46%)
Frame = +2
Query: 251 LNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRA 430
L A +EL R +K + +E +G M+ RI A++ +R + F+ M A
Sbjct: 11 LKFAAKELGRSAKKCDKEEKAEKAKIKKAIQKGNMEVARIHAENAIRQKNQAVNFLRMSA 70
Query: 431 NIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEE 610
+ AV+ ++QT + + ++M GV K+M + + L +I +M +FE Q E +D++ +
Sbjct: 71 RVDAVAARVQTAVTMGKVTKSMAGVVKSMDATLKTMNLEKISALMDKFEHQFETLDVQTQ 130
Query: 611 MMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDEL 724
M ++ ++ DE GL L EL
Sbjct: 131 QMEDTMSSTTTLTTPQGQVDMLLQEMADEAGLDLNMEL 168
>ref|NP_001030223.2| charged multivesicular body protein 3 [Bos taurus].
Length = 222
Score = 63.5 bits (153), Expect = 3e-10
Identities = 36/142 (25%), Positives = 76/142 (53%), Gaps = 2/142 (1%)
Frame = +2
Query: 197 LFGR--RKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRI 370
LFG+ K P+EL+ + + + MR +DR+ + ++ +E +GQ D +
Sbjct: 3 LFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCVV 62
Query: 371 MAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQ 550
+AK+++R+R+ V K +A++ +V + ++ + +A +++ T+ M M +K+P+
Sbjct: 63 LAKEMIRSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPE 122
Query: 551 IQKIMMEFERQAEIMDMKEEMM 616
IQ M E ++ + EEM+
Sbjct: 123 IQATMRELSKEMMKAGIIEEML 144
>ref|NP_001178189.1| chromatin modifying protein 1A-like [Bos taurus].
Length = 196
Score = 58.9 bits (141), Expect = 7e-09
Identities = 34/157 (21%), Positives = 71/157 (45%)
Frame = +2
Query: 266 RELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRANIQAV 445
++L++ +K E Q ++ R+ A++ +R + ++ M + + AV
Sbjct: 13 KQLEKLAKKAEKDSKAEQAKVKKALQQKNVECARVYAENAIRKKNEGVNWLRMASRVDAV 72
Query: 446 SLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEEMMNXX 625
+ K+QT + + + M VTKA+ + L ++ +M FE+Q + +D+ +M
Sbjct: 73 ASKVQTAVTMKGVTKNMAQVTKALDRALSTMDLQKVSAVMDRFEQQVQNLDVHTSVMEDS 132
Query: 626 XXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLP 736
++ Q+ +E GL + D+LS LP
Sbjct: 133 MSSATTLTTPQEQVDSLILQIAEENGLEVLDQLSQLP 169
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: 29,552,433
Number of extensions: 786288
Number of successful extensions: 4284
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 4273
Number of HSP's successfully gapped: 5
Length of query: 327
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 224
Effective length of database: 14,273,310
Effective search space: 3197221440
Effective search space used: 3197221440
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: 34 (17.7 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-002771
(981 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_533565.1| PREDICTED: similar to putative breast adenocarc... 296 3e-80
Alignment gi|XP_850536.1| PREDICTED: similar to putative breast adenocarc... 296 3e-80
Alignment gi|XP_861688.1| PREDICTED: similar to putative breast adenocarc... 251 1e-66
Alignment gi|XP_544799.2| PREDICTED: similar to chromatin modifying prote... 89 8e-18
Alignment gi|XP_532972.2| PREDICTED: similar to vacuolar protein sorting ... 64 3e-10
Alignment gi|XP_546776.2| PREDICTED: similar to Chromatin modifying prote... 57 2e-08
>ref|XP_533565.1| PREDICTED: similar to putative breast adenocarcinoma marker isoform
1 [Canis familiaris].
Length = 222
Score = 296 bits (757), Expect = 3e-80
Identities = 166/222 (74%), Positives = 167/222 (75%)
Frame = +2
Query: 188 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVR 367
MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQE QGQMDAVR
Sbjct: 1 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEKKIIADIKKMAKQGQMDAVR 60
Query: 368 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 547
IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP
Sbjct: 61 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 120
Query: 548 QIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELS 727
QIQKIMMEFERQAEIMDMKEEMMN VV+QVLDELGLSLTDELS
Sbjct: 121 QIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEEDEEESDAVVSQVLDELGLSLTDELS 180
Query: 728 NLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
NLPSTGGSL RLKNLRRD
Sbjct: 181 NLPSTGGSLSVAASGKKAEAAASALVDADADLEERLKNLRRD 222
>ref|XP_850536.1| PREDICTED: similar to putative breast adenocarcinoma marker isoform
2 [Canis familiaris].
Length = 222
Score = 296 bits (757), Expect = 3e-80
Identities = 166/222 (74%), Positives = 167/222 (75%)
Frame = +2
Query: 188 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVR 367
MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQE QGQMDAVR
Sbjct: 1 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEKKIIADIKKMAKQGQMDAVR 60
Query: 368 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 547
IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP
Sbjct: 61 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 120
Query: 548 QIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELS 727
QIQKIMMEFERQAEIMDMKEEMMN VV+QVLDELGLSLTDELS
Sbjct: 121 QIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEEDEEESDAVVSQVLDELGLSLTDELS 180
Query: 728 NLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
NLPSTGGSL RLKNLRRD
Sbjct: 181 NLPSTGGSLSVAASGKKAEAAASALVDADADLEERLKNLRRD 222
>ref|XP_861688.1| PREDICTED: similar to putative breast adenocarcinoma marker isoform
3 [Canis familiaris].
Length = 204
Score = 251 bits (640), Expect = 1e-66
Identities = 148/222 (66%), Positives = 149/222 (67%)
Frame = +2
Query: 188 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVR 367
MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQE QGQMDAVR
Sbjct: 1 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEKKIIADIKKMAKQGQMDAVR 60
Query: 368 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 547
IMAKDL AVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP
Sbjct: 61 IMAKDL------------------AVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 102
Query: 548 QIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELS 727
QIQKIMMEFERQAEIMDMKEEMMN VV+QVLDELGLSLTDELS
Sbjct: 103 QIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEEDEEESDAVVSQVLDELGLSLTDELS 162
Query: 728 NLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
NLPSTGGSL RLKNLRRD
Sbjct: 163 NLPSTGGSLSVAASGKKAEAAASALVDADADLEERLKNLRRD 204
>ref|XP_544799.2| PREDICTED: similar to chromatin modifying protein 2B [Canis
familiaris].
Length = 793
Score = 88.6 bits (218), Expect = 8e-18
Identities = 64/252 (25%), Positives = 110/252 (43%), Gaps = 22/252 (8%)
Frame = +2
Query: 65 GAVVGGRSREPSQRSVTRKWKRTPVPAPR--------------DLP--------QAHRWA 178
GA G P+ R R+ P+PR LP +A R
Sbjct: 518 GASAAGGFATPALRGPARRPALAACPSPRRRSGPSAGPSPPSCPLPAAGGTGRSRAARAR 577
Query: 179 PAAMDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMD 358
P M LF ++KT ++++++ R L R + R+R LE QE G +
Sbjct: 578 PLTMASLF-KKKTVDDVIKEQNRELRGTQRAIIRDRAALEKQEKQLELEIKKMAKIGNKE 636
Query: 359 AVRIMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQL 538
A R++AK LV R+ + + + + ++S + + + S MA AM K M +N+++
Sbjct: 637 ACRVLAKQLVHLRKQKTRTFAVSSKVTSMSTQTKVMNSQMKMAGAMSTTAKTMQAVNKKM 696
Query: 539 KLPQIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTD 718
+ + M F+++ M+M EEM+N +V QVLDE+G+ ++
Sbjct: 697 DPQKTLQTMQNFQKENMKMEMTEEMINDTLDDIFDGSDDEEESQDIVNQVLDEIGIEISG 756
Query: 719 ELSNLPSTGGSL 754
+++ PS SL
Sbjct: 757 KMAKAPSAARSL 768
>ref|XP_532972.2| PREDICTED: similar to vacuolar protein sorting 24 isoform 1 isoform
1 [Canis familiaris].
Length = 221
Score = 63.5 bits (153), Expect = 3e-10
Identities = 36/142 (25%), Positives = 76/142 (53%), Gaps = 2/142 (1%)
Frame = +2
Query: 197 LFGR--RKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRI 370
LFG+ K P+EL+ + + + MR +DR+ + ++ +E +GQ D +
Sbjct: 3 LFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCVV 62
Query: 371 MAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQ 550
+AK+++R+R+ V K +A++ +V + ++ + +A +++ T+ M M +K+P+
Sbjct: 63 LAKEMIRSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPE 122
Query: 551 IQKIMMEFERQAEIMDMKEEMM 616
IQ M E ++ + EEM+
Sbjct: 123 IQATMRELSKEMMKAGIIEEML 144
>ref|XP_546776.2| PREDICTED: similar to Chromatin modifying protein 1 (Charged
multivesicular body protein 1) (CHMP1) isoform 1 [Canis
familiaris].
Length = 196
Score = 57.4 bits (137), Expect = 2e-08
Identities = 33/157 (21%), Positives = 71/157 (45%)
Frame = +2
Query: 266 RELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRANIQAV 445
++L++ +K E Q ++ R+ A++ +R + ++ M + + AV
Sbjct: 13 KQLEKLAKKAEKDSKAEQAKVKKALQQKNVECARVYAENAIRKKNEGVNWLRMASRVDAV 72
Query: 446 SLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEEMMNXX 625
+ K+QT + + + M VTKA+ + L ++ +M FE+Q + +D+ +M
Sbjct: 73 ASKVQTAVTMKGVTKNMAQVTKALDRALSTMDLQKVSAVMDRFEQQVQNLDVHTAVMEDS 132
Query: 626 XXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLP 736
++ Q+ +E GL + D+L+ LP
Sbjct: 133 MSSATTLTTPQEQVDSLIMQIAEENGLEVLDQLNQLP 169
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: 30,556,381
Number of extensions: 749324
Number of successful extensions: 4039
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 4029
Number of HSP's successfully gapped: 6
Length of query: 327
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 224
Effective length of database: 15,440,896
Effective search space: 3458760704
Effective search space used: 3458760704
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: 34 (17.7 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-002771
(981 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_940818.1| charged multivesicular body protein 2a [Homo sa... 296 3e-80
Alignment gi|NP_055268.1| charged multivesicular body protein 2a [Homo sa... 296 3e-80
Alignment gi|NP_054762.2| charged multivesicular body protein 2b [Homo sa... 84 3e-16
Alignment gi|NP_065145.2| charged multivesicular body protein 1b [Homo sa... 71 1e-12
Alignment gi|NP_057163.1| charged multivesicular body protein 3 isoform 1... 64 3e-10
Alignment gi|NP_002759.2| charged multivesicular body protein 1a isoform ... 59 5e-09
Alignment gi|NP_001185883.1| RNF103-VPS24 fusion protein [Homo sapiens]. 56 4e-08
>ref|NP_940818.1| charged multivesicular body protein 2a [Homo sapiens].
Length = 222
Score = 296 bits (757), Expect = 3e-80
Identities = 166/222 (74%), Positives = 167/222 (75%)
Frame = +2
Query: 188 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVR 367
MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQE QGQMDAVR
Sbjct: 1 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEKKIIADIKKMAKQGQMDAVR 60
Query: 368 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 547
IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP
Sbjct: 61 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 120
Query: 548 QIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELS 727
QIQKIMMEFERQAEIMDMKEEMMN VV+QVLDELGLSLTDELS
Sbjct: 121 QIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEEDEEESDAVVSQVLDELGLSLTDELS 180
Query: 728 NLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
NLPSTGGSL RLKNLRRD
Sbjct: 181 NLPSTGGSLSVAAGGKKAEAAASALADADADLEERLKNLRRD 222
>ref|NP_055268.1| charged multivesicular body protein 2a [Homo sapiens].
Length = 222
Score = 296 bits (757), Expect = 3e-80
Identities = 166/222 (74%), Positives = 167/222 (75%)
Frame = +2
Query: 188 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVR 367
MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQE QGQMDAVR
Sbjct: 1 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEKKIIADIKKMAKQGQMDAVR 60
Query: 368 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 547
IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP
Sbjct: 61 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 120
Query: 548 QIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELS 727
QIQKIMMEFERQAEIMDMKEEMMN VV+QVLDELGLSLTDELS
Sbjct: 121 QIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEEDEEESDAVVSQVLDELGLSLTDELS 180
Query: 728 NLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
NLPSTGGSL RLKNLRRD
Sbjct: 181 NLPSTGGSLSVAAGGKKAEAAASALADADADLEERLKNLRRD 222
>ref|NP_054762.2| charged multivesicular body protein 2b [Homo sapiens].
Length = 213
Score = 83.6 bits (205), Expect = 3e-16
Identities = 46/183 (25%), Positives = 89/183 (48%)
Frame = +2
Query: 206 RRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDL 385
++KT ++++++ R L R + R+R LE QE G +A +++AK L
Sbjct: 6 KKKTVDDVIKEQNRELRGTQRAIIRDRAALEKQEKQLELEIKKMAKIGNKEACKVLAKQL 65
Query: 386 VRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIM 565
V R+ + + + + ++S + + + S MA AM K M +N+++ + + M
Sbjct: 66 VHLRKQKTRTFAVSSKVTSMSTQTKVMNSQMKMAGAMSTTAKTMQAVNKKMDPQKTLQTM 125
Query: 566 MEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLPSTG 745
F+++ M+M EEM+N +V QVLDE+G+ ++ +++ PS
Sbjct: 126 QNFQKENMKMEMTEEMINDTLDDIFDGSDDEEESQDIVNQVLDEIGIEISGKMAKAPSAA 185
Query: 746 GSL 754
SL
Sbjct: 186 RSL 188
>ref|NP_065145.2| charged multivesicular body protein 1b [Homo sapiens].
Length = 199
Score = 71.2 bits (173), Expect = 1e-12
Identities = 41/158 (25%), Positives = 74/158 (46%)
Frame = +2
Query: 251 LNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRA 430
L A +EL R +K + +E +G M+ RI A++ +R + F+ M A
Sbjct: 11 LKFAAKELSRSAKKCDKEEKAEKAKIKKAIQKGNMEVARIHAENAIRQKNQAVNFLRMSA 70
Query: 431 NIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEE 610
+ AV+ ++QT + + ++M GV K+M + + L +I +M +FE Q E +D++ +
Sbjct: 71 RVDAVAARVQTAVTMGKVTKSMAGVVKSMDATLKTMNLEKISALMDKFEHQFETLDVQTQ 130
Query: 611 MMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDEL 724
M ++ ++ DE GL L EL
Sbjct: 131 QMEDTMSSTTTLTTPQNQVDMLLQEMADEAGLDLNMEL 168
>ref|NP_057163.1| charged multivesicular body protein 3 isoform 1 [Homo sapiens].
Length = 222
Score = 63.5 bits (153), Expect = 3e-10
Identities = 36/142 (25%), Positives = 76/142 (53%), Gaps = 2/142 (1%)
Frame = +2
Query: 197 LFGR--RKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRI 370
LFG+ K P+EL+ + + + MR +DR+ + ++ +E +GQ D +
Sbjct: 3 LFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIV 62
Query: 371 MAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQ 550
+AK+++R+R+ V K +A++ +V + ++ + +A +++ T+ M M +K+P+
Sbjct: 63 LAKEMIRSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPE 122
Query: 551 IQKIMMEFERQAEIMDMKEEMM 616
IQ M E ++ + EEM+
Sbjct: 123 IQATMRELSKEMMKAGIIEEML 144
>ref|NP_002759.2| charged multivesicular body protein 1a isoform 2 [Homo sapiens].
Length = 196
Score = 59.3 bits (142), Expect = 5e-09
Identities = 34/157 (21%), Positives = 71/157 (45%)
Frame = +2
Query: 266 RELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRANIQAV 445
++L++ +K E Q ++ R+ A++ +R + ++ M + + AV
Sbjct: 13 KQLEKLAKKAEKDSKAEQAKVKKALLQKNVECARVYAENAIRKKNEGVNWLRMASRVDAV 72
Query: 446 SLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEEMMNXX 625
+ K+QT + + + M VTKA+ + L ++ +M FE+Q + +D+ +M
Sbjct: 73 ASKVQTAVTMKGVTKNMAQVTKALDKALSTMDLQKVSSVMDRFEQQVQNLDVHTSVMEDS 132
Query: 626 XXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLP 736
++ Q+ +E GL + D+LS LP
Sbjct: 133 MSSATTLTTPQEQVDSLIMQIAEENGLEVLDQLSQLP 169
>ref|NP_001185883.1| RNF103-VPS24 fusion protein [Homo sapiens].
Length = 251
Score = 56.2 bits (134), Expect = 4e-08
Identities = 31/129 (24%), Positives = 69/129 (53%)
Frame = +2
Query: 230 LRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVR 409
+R+ R ++R +R++ RE +K++ +GQ D ++AK+++R+R+ V
Sbjct: 52 IRKEMRVVDRQIRDIQREEEKVKRS-------VKDAAKKGQKDVCIVLAKEMIRSRKAVS 104
Query: 410 KFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAE 589
K +A++ +V + ++ + +A +++ T+ M M +K+P+IQ M E ++
Sbjct: 105 KLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPEIQATMRELSKEMM 164
Query: 590 IMDMKEEMM 616
+ EEM+
Sbjct: 165 KAGIIEEML 173
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: 29,806,540
Number of extensions: 725162
Number of successful extensions: 3778
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 3767
Number of HSP's successfully gapped: 7
Length of query: 327
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 224
Effective length of database: 14,901,872
Effective search space: 3338019328
Effective search space used: 3338019328
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: 34 (17.7 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-002771
(981 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_081161.1| charged multivesicular body protein 2a [Mus mus... 296 2e-80
Alignment gi|NP_081155.1| charged multivesicular body protein 2b [Mus mus... 85 1e-16
Alignment gi|NP_080197.2| charged multivesicular body protein 1b-2 [Mus m... 71 1e-12
Alignment gi|NP_077152.1| charged multivesicular body protein 1b-1 [Mus m... 71 1e-12
Alignment gi|NP_080059.2| charged multivesicular body protein 3 [Mus musc... 62 7e-10
Alignment gi|NP_663581.1| charged multivesicular body protein 1a [Mus mus... 59 4e-09
>ref|NP_081161.1| charged multivesicular body protein 2a [Mus musculus].
Length = 222
Score = 296 bits (757), Expect = 2e-80
Identities = 166/222 (74%), Positives = 167/222 (75%)
Frame = +2
Query: 188 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVR 367
MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQE QGQMDAVR
Sbjct: 1 MDLLFGRRKTPEELLRQNQRALNRAMRELDRERQKLETQEKKIIADIKKMAKQGQMDAVR 60
Query: 368 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 547
IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP
Sbjct: 61 IMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLP 120
Query: 548 QIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELS 727
QIQKIMMEFERQAEIMDMKEEMMN VV+QVLDELGLSLTDELS
Sbjct: 121 QIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEEDEEESDAVVSQVLDELGLSLTDELS 180
Query: 728 NLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
NLPSTGGSL RLKNLRRD
Sbjct: 181 NLPSTGGSLSVAAGGKKAEATASALADADADLEERLKNLRRD 222
>ref|NP_081155.1| charged multivesicular body protein 2b [Mus musculus].
Length = 213
Score = 84.7 bits (208), Expect = 1e-16
Identities = 47/183 (25%), Positives = 89/183 (48%)
Frame = +2
Query: 206 RRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDL 385
++KT ++++++ R L R + R+R LE QE G +A R++AK L
Sbjct: 6 KKKTVDDVIKEQNRELRGTQRAIIRDRAALEKQEKQLELEIKKMAKIGNKEACRVLAKQL 65
Query: 386 VRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIM 565
V R+ + + + + ++S + + + S MA AM K M +N+++ + + M
Sbjct: 66 VHLRKQKTRTFAVSSKVTSMSTQTKVMNSQMKMAGAMSTTAKTMQAVNKKMDPQKTLQTM 125
Query: 566 MEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLPSTG 745
F+++ M+M EEM+N +V QVLDE+G+ ++ +++ PS
Sbjct: 126 QNFQKENMKMEMTEEMINDTLDDIFDGSDDEEESQDIVNQVLDEIGIEISGKMAKAPSAA 185
Query: 746 GSL 754
SL
Sbjct: 186 RSL 188
>ref|NP_080197.2| charged multivesicular body protein 1b-2 [Mus musculus].
Length = 199
Score = 70.9 bits (172), Expect = 1e-12
Identities = 41/158 (25%), Positives = 74/158 (46%)
Frame = +2
Query: 251 LNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRA 430
L A +EL+R +K + +E +G + RI A++ +R + F+ M A
Sbjct: 11 LKFAAKELNRNAKKCDKEEKAEKAKIKKAIQKGNTEVARIHAENAIRQKNQAINFLRMSA 70
Query: 431 NIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEE 610
+ AV+ ++QT + + ++M GV K+M R + L +I +M +FE Q E +D++ +
Sbjct: 71 RVDAVAARVQTAVTMGKVTKSMAGVVKSMDATLRSMNLEKISALMDKFEHQFETLDVQTQ 130
Query: 611 MMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDEL 724
M ++ ++ DE GL L EL
Sbjct: 131 QMEDTMSSTTTLTTPQNQVDMLLQEMADEAGLDLNMEL 168
>ref|NP_077152.1| charged multivesicular body protein 1b-1 [Mus musculus].
Length = 199
Score = 70.9 bits (172), Expect = 1e-12
Identities = 41/158 (25%), Positives = 75/158 (47%)
Frame = +2
Query: 251 LNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRA 430
L A +EL+R +K + +E +G M+ RI A++ +R + F+ M A
Sbjct: 11 LKFAAKELNRSSKKCDKEEKAEKAKIKKAIQKGNMEVARIHAENAIRQKNQGVNFLRMSA 70
Query: 431 NIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEE 610
+ AV+ ++QT + + ++M GV K+M + + L +I +M +FE Q E +D++ +
Sbjct: 71 RVDAVAARVQTAVTMGKVTKSMAGVVKSMDATLKSMNLEKISALMDKFEHQFETLDVQTQ 130
Query: 611 MMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDEL 724
M ++ ++ DE GL L EL
Sbjct: 131 QMEDTMSSTTTLTTPQNQVDMLLQEMADEAGLDLNMEL 168
>ref|NP_080059.2| charged multivesicular body protein 3 [Mus musculus].
Length = 224
Score = 62.0 bits (149), Expect = 7e-10
Identities = 35/142 (24%), Positives = 76/142 (53%), Gaps = 2/142 (1%)
Frame = +2
Query: 197 LFGR--RKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRI 370
LFG+ K P+EL+ + + + MR +DR+ + ++ +E +GQ + +
Sbjct: 3 LFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKEVCVV 62
Query: 371 MAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQ 550
+AK+++R+R+ V K +A++ +V + ++ + +A +++ T+ M M +K+P+
Sbjct: 63 LAKEMIRSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPE 122
Query: 551 IQKIMMEFERQAEIMDMKEEMM 616
IQ M E ++ + EEM+
Sbjct: 123 IQATMRELSKEMMKAGIIEEML 144
>ref|NP_663581.1| charged multivesicular body protein 1a [Mus musculus].
Length = 196
Score = 59.3 bits (142), Expect = 4e-09
Identities = 34/157 (21%), Positives = 71/157 (45%)
Frame = +2
Query: 266 RELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRANIQAV 445
++L++ +K E Q ++ R+ A++ +R + ++ M + + AV
Sbjct: 13 KQLEKLAKKAEKDSKAEQAKVKKALQQKNVECARVYAENAIRKKNEGVNWLRMASRVDAV 72
Query: 446 SLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEEMMNXX 625
+ K+QT + + + M VTKA+ + L ++ +M FE+Q + +D+ +M
Sbjct: 73 ASKVQTAVTMKGVTKNMAQVTKALDKALSAMDLQKVSAVMDRFEQQVQNLDVHTSVMEDS 132
Query: 626 XXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLP 736
++ Q+ +E GL + D+LS LP
Sbjct: 133 VSSATTLTTPQEQVDSLIVQIAEENGLEVLDQLSQLP 169
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: 24,971,229
Number of extensions: 593977
Number of successful extensions: 2959
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 2947
Number of HSP's successfully gapped: 6
Length of query: 327
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 225
Effective length of database: 12,553,887
Effective search space: 2824624575
Effective search space used: 2824624575
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: 34 (17.7 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-002771
(981 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_003361783.1| PREDICTED: charged multivesicular body prote... 217 9e-57
Alignment gi|XP_003132778.1| PREDICTED: charged multivesicular body prote... 85 7e-17
Alignment gi|XP_003356398.1| PREDICTED: charged multivesicular body prote... 71 1e-12
Alignment gi|XP_003354782.1| PREDICTED: charged multivesicular body prote... 64 2e-10
Alignment gi|NP_001230289.1| chromatin modifying protein 1A [Sus scrofa]. 59 4e-09
Alignment gi|XP_003125011.2| PREDICTED: charged multivesicular body prote... 56 3e-08
Alignment gi|XP_003354783.1| PREDICTED: charged multivesicular body prote... 54 1e-07
>ref|XP_003361783.1| PREDICTED: charged multivesicular body protein 2a-like, partial
[Sus scrofa].
Length = 177
Score = 217 bits (552), Expect = 9e-57
Identities = 123/166 (74%), Positives = 123/166 (74%)
Frame = +2
Query: 356 DAVRIMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQ 535
DAVRIMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQ
Sbjct: 12 DAVRIMAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQ 71
Query: 536 LKLPQIQKIMMEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLT 715
LKLPQIQKIMMEFERQAEIMDMKEEMMN VVAQVLDELGLSLT
Sbjct: 72 LKLPQIQKIMMEFERQAEIMDMKEEMMNDAIDDAMGDEEDEEESDAVVAQVLDELGLSLT 131
Query: 716 DELSNLPSTGGSLXXXXXXXXXXXXXXXXXXXXXXXXXRLKNLRRD 853
DELSNLPSTGGSL RLKNLRRD
Sbjct: 132 DELSNLPSTGGSLSVAASGKKAEAAASALVDADADLEERLKNLRRD 177
>ref|XP_003132778.1| PREDICTED: charged multivesicular body protein 2b-like [Sus
scrofa].
Length = 213
Score = 84.7 bits (208), Expect = 7e-17
Identities = 47/183 (25%), Positives = 89/183 (48%)
Frame = +2
Query: 206 RRKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDL 385
++KT ++++++ R L R + R+R LE QE G +A R++AK L
Sbjct: 6 KKKTVDDVIKEQNRELRGTQRAIIRDRAALEKQEKQLELEIKKMAKIGNKEACRVLAKQL 65
Query: 386 VRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIM 565
V R+ + + + + ++S + + + S MA AM K M +N+++ + + M
Sbjct: 66 VHLRKQKTRTFAVSSKVTSMSTQTKVMNSQMKMAGAMSTTAKTMQAVNKKMDPQKTLQTM 125
Query: 566 MEFERQAEIMDMKEEMMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLPSTG 745
F+++ M+M EEM+N +V QVLDE+G+ ++ +++ PS
Sbjct: 126 QNFQKENMKMEMTEEMINDTLDDIFDGSDDEEESQDIVNQVLDEIGIEISGKMAKAPSAA 185
Query: 746 GSL 754
SL
Sbjct: 186 RSL 188
>ref|XP_003356398.1| PREDICTED: charged multivesicular body protein 1b-like [Sus
scrofa].
Length = 199
Score = 70.9 bits (172), Expect = 1e-12
Identities = 41/158 (25%), Positives = 74/158 (46%)
Frame = +2
Query: 251 LNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRA 430
L A +EL R +K + +E +G M+ RI A++ +R + F+ M A
Sbjct: 11 LKFAAKELGRSAKKCDKEEKAEKAKIKKAIQKGNMEVARIHAENAIRQKNQAVNFLRMSA 70
Query: 431 NIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEE 610
+ AV+ ++QT + + ++M GV K+M + + L +I +M +FE Q E +D++ +
Sbjct: 71 RVDAVAARVQTAVTMGKVTKSMAGVVKSMDATLKTMNLEKISALMDKFEHQFETLDVQTQ 130
Query: 611 MMNXXXXXXXXXXXXXXXXXXVVAQVLDELGLSLTDEL 724
M ++ ++ DE GL L EL
Sbjct: 131 QMEDTMSSTTTLTTPQGQVDMLLQEMADEAGLDLNMEL 168
>ref|XP_003354782.1| PREDICTED: charged multivesicular body protein 3-like isoform 2
[Sus scrofa].
Length = 221
Score = 63.5 bits (153), Expect = 2e-10
Identities = 36/142 (25%), Positives = 76/142 (53%), Gaps = 2/142 (1%)
Frame = +2
Query: 197 LFGR--RKTPEELLRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRI 370
LFG+ K P+EL+ + + + MR +DR+ + ++ +E +GQ D +
Sbjct: 3 LFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCVV 62
Query: 371 MAKDLVRTRRYVRKFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQ 550
+AK+++R+R+ V K +A++ +V + ++ + +A +++ T+ M M +K+P+
Sbjct: 63 LAKEMIRSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPE 122
Query: 551 IQKIMMEFERQAEIMDMKEEMM 616
IQ M E ++ + EEM+
Sbjct: 123 IQATMRELSKEMMKAGIIEEML 144
>ref|NP_001230289.1| chromatin modifying protein 1A [Sus scrofa].
Length = 196
Score = 58.9 bits (141), Expect = 4e-09
Identities = 34/157 (21%), Positives = 72/157 (45%)
Frame = +2
Query: 266 RELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRANIQAV 445
++L++ +K E Q ++ R+ A++ +R + ++ M + + AV
Sbjct: 13 KQLEKLAKKAEKDSKAEQAKVKKALQQKNVECARVYAENAIRKKNEGVNWLRMASRVDAV 72
Query: 446 SLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEEMMNXX 625
+ K+QT + + + M VTKA+ + L ++ +M +FE+Q + +D+ +M
Sbjct: 73 ASKVQTAVTMKGVTKNMAQVTKALDRALSTMDLQKVSAVMDKFEQQVQNLDVHTAVMEDS 132
Query: 626 XXXXXXXXXXXXXXXXVVAQVLDELGLSLTDELSNLP 736
++ Q+ +E GL + D+LS LP
Sbjct: 133 MSSATTLTTPQEQVDSLIMQIAEENGLEVLDQLSQLP 169
>ref|XP_003125011.2| PREDICTED: charged multivesicular body protein 3-like isoform 1
[Sus scrofa].
Length = 213
Score = 56.2 bits (134), Expect = 3e-08
Identities = 31/129 (24%), Positives = 69/129 (53%)
Frame = +2
Query: 230 LRQNQRALNRAMRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVR 409
+R+ R ++R +R++ RE +K++ +GQ D ++AK+++R+R+ V
Sbjct: 15 IRKEMRVVDRQIRDIQREEEKVKRS-------VKDAAKKGQKDVCVVLAKEMIRSRKAVS 67
Query: 410 KFVLMRANIQAVSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAE 589
K +A++ +V + ++ + +A +++ T+ M M +K+P+IQ M E ++
Sbjct: 68 KLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPEIQATMRELSKEMM 127
Query: 590 IMDMKEEMM 616
+ EEM+
Sbjct: 128 KAGIIEEML 136
>ref|XP_003354783.1| PREDICTED: charged multivesicular body protein 3-like isoform 3
[Sus scrofa].
Length = 195
Score = 53.9 bits (128), Expect = 1e-07
Identities = 29/118 (24%), Positives = 63/118 (53%)
Frame = +2
Query: 263 MRELDRERQKLETQEXXXXXXXXXXXXQGQMDAVRIMAKDLVRTRRYVRKFVLMRANIQA 442
MR +DR+ + ++ +E +GQ D ++AK+++R+R+ V K +A++ +
Sbjct: 1 MRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCVVLAKEMIRSRKAVSKLYASKAHMNS 60
Query: 443 VSLKIQTLKSNNSMAQAMKGVTKAMGTMNRQLKLPQIQKIMMEFERQAEIMDMKEEMM 616
V + ++ + +A +++ T+ M M +K+P+IQ M E ++ + EEM+
Sbjct: 61 VLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPEIQATMRELSKEMMKAGIIEEML 118
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: 19,622,457
Number of extensions: 585824
Number of successful extensions: 2493
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 2484
Number of HSP's successfully gapped: 7
Length of query: 327
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 228
Effective length of database: 8,879,129
Effective search space: 2024441412
Effective search space used: 2024441412
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: 34 (17.7 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-002771
(981 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|GL895345.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 359 2e-96
gb|GL895557.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 244 8e-62
>gb|GL895345.1| Sus scrofa unplaced genomic scaffold chrU_scaffold392
Length = 986
Score = 359 bits (181), Expect = 2e-96
Identities = 184/185 (99%)
Strand = Plus / Minus
Query: 729 acctcccctccaccggaggttccctcagtgtggctgccagtgggaagaaggccgaggccg 788
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 185 acctcccctccaccggaggttccctcagtgtggctgccagtgggaagaaggccgaggccg 126
Query: 789 cagcctcggccctagttgatgcagacgcagatctggaggagcggctcaagaaccttcgaa 848
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 125 cagcctcggccctagttgatgcagacgcagatctggaggagcggctcaagaaccttcgaa 66
Query: 849 gggactgattactccctgtgccaccccagggaaccagcagatggcccagcattttcactg 908
|||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65 gggactgattgctccctgtgccaccccagggaaccagcagatggcccagcattttcactg 6
Query: 909 tacct 913
|||||
Sbjct: 5 tacct 1
Score = 359 bits (181), Expect = 2e-96
Identities = 181/181 (100%)
Strand = Plus / Minus
Query: 355 ggatgcggtgcgcatcatggcaaaagacctggtgcgcacccggcggtacgtgcgcaagtt 414
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 841 ggatgcggtgcgcatcatggcaaaagacctggtgcgcacccggcggtacgtgcgcaagtt 782
Query: 415 cgtgttgatgcgggccaacatccaggccgtgtccctcaagatccagacgctcaagtctaa 474
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 781 cgtgttgatgcgggccaacatccaggccgtgtccctcaagatccagacgctcaagtctaa 722
Query: 475 caactccatggcacaagccatgaagggcgtcaccaaggccatgggcaccatgaacagaca 534
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 721 caactccatggcacaagccatgaagggcgtcaccaaggccatgggcaccatgaacagaca 662
Query: 535 g 535
|
Sbjct: 661 g 661
Score = 258 bits (130), Expect = 5e-66
Identities = 133/134 (99%)
Strand = Plus / Minus
Query: 533 cagctcaagctgccccagatccagaagatcatgatggagtttgagcggcaggcggagatc 592
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 589 cagctcaagctgccccagatccagaagatcatgatggagtttgagcggcaggcggagatc 530
Query: 593 atggacatgaaggaggagatgatgaacgacgccatcgacgacgccatgggggacgaggag 652
||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 529 atggacatgaaggaggagatgatgaacgatgccatcgacgacgccatgggggacgaggag 470
Query: 653 gacgaggaggagag 666
||||||||||||||
Sbjct: 469 gacgaggaggagag 456
Score = 127 bits (64), Expect = 1e-26
Identities = 64/64 (100%)
Strand = Plus / Minus
Query: 665 agcgatgccgtcgtggctcaggtcctggatgagctggggttgagcctgacagatgagctg 724
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 372 agcgatgccgtcgtggctcaggtcctggatgagctggggttgagcctgacagatgagctg 313
Query: 725 tcaa 728
||||
Sbjct: 312 tcaa 309
>gb|GL895557.1| Sus scrofa unplaced genomic scaffold chrU_scaffold411
Length = 1310
Score = 244 bits (123), Expect = 8e-62
Identities = 123/123 (100%)
Strand = Plus / Plus
Query: 26 atccggaaacggcggcgacggcagaggcgacagaaccaaggggctgtggttggtgggcgc 85
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1098 atccggaaacggcggcgacggcagaggcgacagaaccaaggggctgtggttggtgggcgc 1157
Query: 86 tccagggagccgagccagaggagcgtgacccggaagtggaagcgaacccccgtcccagct 145
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1158 tccagggagccgagccagaggagcgtgacccggaagtggaagcgaacccccgtcccagct 1217
Query: 146 ccg 148
|||
Sbjct: 1218 ccg 1220
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: 22,696,581
Number of extensions: 273
Number of successful extensions: 273
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 273
Number of HSP's successfully gapped: 5
Length of query: 981
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 960
Effective length of database: 2,808,413,156
Effective search space: 2696076629760
Effective search space used: 2696076629760
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)