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-000838
(1049 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]. 428 e-120
Alignment gi|NP_001073707.1| rhomboid domain-containing protein 3 [Bos ta... 58 2e-08
>ref|NP_001039943.2| rhomboid domain containing 2 [Bos taurus].
Length = 364
Score = 428 bits (1100), Expect = e-120
Identities = 205/233 (87%), Positives = 218/233 (93%)
Frame = +3
Query: 351 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 530
VYRLVTYIFVYENPVSLLCGAI+IWRFAGNFERTVGTVRHCFFTV+F + AIIFLSFEA
Sbjct: 60 VYRLVTYIFVYENPVSLLCGAIVIWRFAGNFERTVGTVRHCFFTVVFTIICAIIFLSFEA 119
Query: 531 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 710
VS LSKLGEVEDARGFTPVAFAMLGVN VR+RMRRALVFG+VVPS+LVPWLLLCASWLIP
Sbjct: 120 VSSLSKLGEVEDARGFTPVAFAMLGVNCVRSRMRRALVFGVVVPSLLVPWLLLCASWLIP 179
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 890
QTSFLSNVCGLGIGLAYGLTYC+S D+PE VA+KLDQKFPFSLMRRIS+FKYISGSSAER
Sbjct: 180 QTSFLSNVCGLGIGLAYGLTYCFSFDVPEQVAVKLDQKFPFSLMRRISMFKYISGSSAER 239
Query: 891 KAAHSPRLNPVPGSYPTQSGHPHLPPKHPVAQMQHASGQKLASWPSCAPGDMP 1049
+AA S + NPVPGSYPTQSGHPHL P HP AQMQHAS QKLA+WPSCAPG MP
Sbjct: 240 RAAQSRKPNPVPGSYPTQSGHPHLTPNHPAAQMQHASSQKLAAWPSCAPGHMP 292
Score = 116 bits (290), Expect = 4e-26
Identities = 56/57 (98%), Positives = 56/57 (98%)
Frame = +1
Query: 55 VSEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 225
VSEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQ PLAPSGLSLRSEALRNWQ
Sbjct: 3 VSEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQQPLAPSGLSLRSEALRNWQ 59
>ref|NP_001073707.1| rhomboid domain-containing protein 3 [Bos taurus].
Length = 362
Score = 57.8 bits (138), Expect = 2e-08
Identities = 63/244 (25%), Positives = 94/244 (38%), Gaps = 15/244 (6%)
Frame = +3
Query: 354 YRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAV 533
+RL+T+ + LL +++ ER +GT+R + + AL S ++ + +
Sbjct: 27 HRLLTHALGHTALPGLLLSLLLLPTLGWQQERHLGTLRFLHASSLLALASGLLAVLLAGL 86
Query: 534 SKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP- 710
G G+ PV AML R R R +P L+PWLLL + L+
Sbjct: 87 GVSGAAGGC----GYMPVHLAMLAGQGSRPRRPRG-----ALPPWLLPWLLLALTPLLSS 137
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYI--SGSSA 884
+ FL CGL GLAY L+L E L + + + + G A
Sbjct: 138 EPPFLQLFCGLLAGLAYAAGAFRWLELSEQRLQALQEGVLCKALAGCWPLQLLPAPGGPA 197
Query: 885 ERKAAHSPRLNP---------VPGSYPTQSGH-PHLPPKHPVAQMQHASGQKLASW--PS 1028
E AH + P P +P G P LP PV + S + +W P
Sbjct: 198 ELPVAHPAGVRPPTPGPPRMASPSLWPLSEGSAPILPGLRPVQPLWEGSSEAGLAWSGPG 257
Query: 1029 CAPG 1040
PG
Sbjct: 258 FPPG 261
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: 40,805,484
Number of extensions: 1264909
Number of successful extensions: 8971
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 8838
Number of HSP's successfully gapped: 3
Length of query: 349
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 246
Effective length of database: 14,273,310
Effective search space: 3511234260
Effective search space used: 3511234260
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-000838
(1049 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 ... 444 e-125
Alignment gi|XP_857923.1| PREDICTED: similar to rhomboid, veinlet-like 7 ... 142 5e-34
Alignment gi|XP_543467.2| PREDICTED: similar to chromosome 22 open readin... 52 7e-07
>ref|XP_546933.1| PREDICTED: similar to rhomboid, veinlet-like 7 isoform 1 [Canis
familiaris].
Length = 366
Score = 444 bits (1143), Expect = e-125
Identities = 216/233 (92%), Positives = 223/233 (95%)
Frame = +3
Query: 351 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 530
VYRLVTYIFVYENP+SLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFA+ SAIIFLSFEA
Sbjct: 63 VYRLVTYIFVYENPISLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFAIFSAIIFLSFEA 122
Query: 531 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 710
VS LSKLGEVEDARGFTPVAFAMLGVNSVR+RMRRALVFGMVVPSMLVPWLLLCASWLIP
Sbjct: 123 VSSLSKLGEVEDARGFTPVAFAMLGVNSVRSRMRRALVFGMVVPSMLVPWLLLCASWLIP 182
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 890
QTSFLSNVCGLGIGLAYGLTYCYSLDL E VALKLDQKFPFSLMRRIS+FKYISGSSAER
Sbjct: 183 QTSFLSNVCGLGIGLAYGLTYCYSLDLSERVALKLDQKFPFSLMRRISVFKYISGSSAER 242
Query: 891 KAAHSPRLNPVPGSYPTQSGHPHLPPKHPVAQMQHASGQKLASWPSCAPGDMP 1049
+AAH +LNPVPGSYPTQSGHPHL P HPVAQMQH SGQKLASWP+CAPG MP
Sbjct: 243 RAAHGRKLNPVPGSYPTQSGHPHLSPNHPVAQMQHTSGQKLASWPACAPGHMP 295
Score = 107 bits (266), Expect = 2e-23
Identities = 53/56 (94%), Positives = 53/56 (94%)
Frame = +1
Query: 58 SEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 225
SEP RSWSL PEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ
Sbjct: 7 SEPACRSWSLCPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 62
>ref|XP_857923.1| PREDICTED: similar to rhomboid, veinlet-like 7 isoform 2 [Canis
familiaris].
Length = 82
Score = 142 bits (358), Expect = 5e-34
Identities = 72/76 (94%), Positives = 73/76 (96%)
Frame = +1
Query: 58 SEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQATME 237
SEP RSWSL PEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQATME
Sbjct: 7 SEPACRSWSLCPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQATME 66
Query: 238 GEVRITAEETGTKSVK 285
GEVRITAEETGT+SVK
Sbjct: 67 GEVRITAEETGTQSVK 82
>ref|XP_543467.2| PREDICTED: similar to chromosome 22 open reading frame 3 [Canis
familiaris].
Length = 386
Score = 52.4 bits (124), Expect = 7e-07
Identities = 63/244 (25%), Positives = 93/244 (38%), Gaps = 15/244 (6%)
Frame = +3
Query: 354 YRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAV 533
+RL+T+ + LL +++ E +GT+R + + AL + ++ + +
Sbjct: 51 HRLLTHALGHTALPGLLLSLLLLPTLGWWQECHLGTLRFLHASALLALAAGLMGVLLAGL 110
Query: 534 SKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP- 710
S G G+ PV AML R ++P L+PWLLL + L+
Sbjct: 111 GVSSAAGGC----GYMPVHLAMLAGQGYHPRQPLG-----ILPPWLLPWLLLALTPLLSS 161
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYI--SGSSA 884
+ FL CGL GLAY L+L E L + + R F+ + GS A
Sbjct: 162 EPPFLQLFCGLLAGLAYAAGAFQWLELSERRLQALQEGALCRALARCWPFRLLPTPGSLA 221
Query: 885 ERKAAHSPRLNP---------VPGSYPTQSGHPHLPP-KHPVAQMQHASGQKLASW--PS 1028
E H P P + G LPP V Q S + A W PS
Sbjct: 222 ELPVIHPAAARPPTPGLPYMASPSLWSRSEGSAQLPPGLGSVQQTWEGSSEVGAVWAGPS 281
Query: 1029 CAPG 1040
PG
Sbjct: 282 FPPG 285
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: 42,442,068
Number of extensions: 1297479
Number of successful extensions: 8754
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 8667
Number of HSP's successfully gapped: 4
Length of query: 349
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 245
Effective length of database: 15,407,560
Effective search space: 3774852200
Effective search space used: 3774852200
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 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-000838
(1049 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... 422 e-118
Alignment gi|NP_001035547.1| rhomboid domain-containing protein 2 isoform... 266 2e-71
Alignment gi|NP_036397.1| rhomboid domain-containing protein 3 [Homo sapi... 51 2e-06
>ref|NP_001035546.1| rhomboid domain-containing protein 2 isoform a [Homo sapiens].
Length = 364
Score = 422 bits (1084), Expect = e-118
Identities = 206/233 (88%), Positives = 217/233 (93%)
Frame = +3
Query: 351 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 530
VYRLVTYIFVYENP+SLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFA+ SAIIFLSFEA
Sbjct: 60 VYRLVTYIFVYENPISLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFAIFSAIIFLSFEA 119
Query: 531 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 710
VS LSKLGEVEDARGFTPVAFAMLGV +VR+RMRRALVFGMVVPS+LVPWLLL ASWLIP
Sbjct: 120 VSSLSKLGEVEDARGFTPVAFAMLGVTTVRSRMRRALVFGMVVPSVLVPWLLLGASWLIP 179
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 890
QTSFLSNVCGL IGLAYGLTYCYS+DL E VALKLDQ FPFSLMRRIS+FKY+SGSSAER
Sbjct: 180 QTSFLSNVCGLSIGLAYGLTYCYSIDLSERVALKLDQTFPFSLMRRISVFKYVSGSSAER 239
Query: 891 KAAHSPRLNPVPGSYPTQSGHPHLPPKHPVAQMQHASGQKLASWPSCAPGDMP 1049
+AA S +LNPVPGSYPTQS HPHL P HPV+Q QHASGQKLASWPSC PG MP
Sbjct: 240 RAAQSRKLNPVPGSYPTQSCHPHLSPSHPVSQTQHASGQKLASWPSCTPGHMP 292
Score = 99.4 bits (246), Expect = 5e-21
Identities = 49/56 (87%), Positives = 51/56 (91%)
Frame = +1
Query: 58 SEPGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 225
S PG RSW L PEVPSATFFTALLSLLVSGPRLFLLQ PLAPSGL+L+SEALRNWQ
Sbjct: 4 SGPGCRSWCLCPEVPSATFFTALLSLLVSGPRLFLLQQPLAPSGLTLKSEALRNWQ 59
>ref|NP_001035547.1| rhomboid domain-containing protein 2 isoform b [Homo sapiens].
Length = 223
Score = 266 bits (681), Expect = 2e-71
Identities = 128/151 (84%), Positives = 137/151 (90%)
Frame = +3
Query: 597 MLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIPQTSFLSNVCGLGIGLAYGLTYC 776
MLGV +VR+RMRRALVFGMVVPS+LVPWLLL ASWLIPQTSFLSNVCGL IGLAYGLTYC
Sbjct: 1 MLGVTTVRSRMRRALVFGMVVPSVLVPWLLLGASWLIPQTSFLSNVCGLSIGLAYGLTYC 60
Query: 777 YSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAERKAAHSPRLNPVPGSYPTQSGHP 956
YS+DL E VALKLDQ FPFSLMRRIS+FKY+SGSSAER+AA S +LNPVPGSYPTQS HP
Sbjct: 61 YSIDLSERVALKLDQTFPFSLMRRISVFKYVSGSSAERRAAQSRKLNPVPGSYPTQSCHP 120
Query: 957 HLPPKHPVAQMQHASGQKLASWPSCAPGDMP 1049
HL P HPV+Q QHASGQKLASWPSC PG MP
Sbjct: 121 HLSPSHPVSQTQHASGQKLASWPSCTPGHMP 151
>ref|NP_036397.1| rhomboid domain-containing protein 3 [Homo sapiens].
Length = 386
Score = 50.8 bits (120), Expect = 2e-06
Identities = 41/138 (29%), Positives = 62/138 (44%), Gaps = 1/138 (0%)
Frame = +3
Query: 351 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 530
V+RL+T+ + LL +++ E +GT+R + + AL S ++ +
Sbjct: 50 VHRLLTHALGHTALPGLLLSLLLLPTVGWQQECHLGTLRFLHASALLALASGLLAVLLAG 109
Query: 531 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 710
+ S G G+ PV AML R R R +P L PWLLL + L+
Sbjct: 110 LGLSSAAGSC----GYMPVHLAMLAGEGHRPRRPRG-----ALPPWLSPWLLLALTPLLS 160
Query: 711 -QTSFLSNVCGLGIGLAY 761
+ FL +CGL GLAY
Sbjct: 161 SEPPFLQLLCGLLAGLAY 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: 41,527,209
Number of extensions: 1257029
Number of successful extensions: 8539
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 8413
Number of HSP's successfully gapped: 4
Length of query: 349
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 246
Effective length of database: 14,901,872
Effective search space: 3665860512
Effective search space used: 3665860512
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-000838
(1049 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... 406 e-113
Alignment gi|NP_796344.1| rhomboid domain-containing protein 3 [Mus muscu... 50 3e-06
>ref|NP_666114.1| rhomboid domain-containing protein 2 [Mus musculus].
Length = 361
Score = 406 bits (1043), Expect = e-113
Identities = 203/233 (87%), Positives = 213/233 (91%)
Frame = +3
Query: 351 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 530
VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFT+IF + SAII+LSFE+
Sbjct: 60 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTLIFTVFSAIIYLSFES 119
Query: 531 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 710
VS LSKLGEVEDARGFTPVAFAMLGV SVR+RMRRALVFG+VVPS+LVPWLLLCASWLIP
Sbjct: 120 VSSLSKLGEVEDARGFTPVAFAMLGVTSVRSRMRRALVFGVVVPSVLVPWLLLCASWLIP 179
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 890
QTSFLSNV GL IGL+YGLTYCYSLDL E VALKLDQKFPFSLMRRI LFKYISGSSAER
Sbjct: 180 QTSFLSNVSGLLIGLSYGLTYCYSLDLSERVALKLDQKFPFSLMRRIPLFKYISGSSAER 239
Query: 891 KAAHSPRLNPVPGSYPTQSGHPHLPPKHPVAQMQHASGQKLASWPSCAPGDMP 1049
+AA S RLNP PGSYPTQS HPHL P +PV QMQHASGQKLASWP PG MP
Sbjct: 240 RAAQSRRLNPAPGSYPTQSCHPHLTPSYPVTQMQHASGQKLASWP---PGHMP 289
Score = 97.1 bits (240), Expect = 2e-20
Identities = 48/54 (88%), Positives = 48/54 (88%)
Frame = +1
Query: 64 PGYRSWSLWPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 225
P R W PEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ
Sbjct: 6 PASRFWCSCPEVPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 59
>ref|NP_796344.1| rhomboid domain-containing protein 3 [Mus musculus].
Length = 385
Score = 50.1 bits (118), Expect = 3e-06
Identities = 59/237 (24%), Positives = 92/237 (38%), Gaps = 13/237 (5%)
Frame = +3
Query: 351 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 530
V+RL+T+ + LL +++ E +GTVR + + AL + ++ +
Sbjct: 50 VHRLLTHALGHTALPGLLLSLLLLPTLGWWQECHLGTVRFLHNSTVLALATGLLAVLLAG 109
Query: 531 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 710
+ G G+ PV AML S + +P L+PWLLL + L+
Sbjct: 110 LGVSGAAGGC----GYMPVHLAMLAGQSHHPGWPQR-----TLPPWLLPWLLLALTLLLS 160
Query: 711 -QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRR---ISLFKYISGS 878
+ FL +CGL GLAY L+L E L + + R + LF GS
Sbjct: 161 SEPPFLQLLCGLLTGLAYAAGAFQWLELSEQRLQVLQEGVLCKSLARCWPLRLFP-TPGS 219
Query: 879 SAE---------RKAAHSPRLNPVPGSYPTQSGHPHLPPKHPVAQMQHASGQKLASW 1022
E R A P S+P G LPP+ Q+ + ++ W
Sbjct: 220 LGELPVTYPAGVRPATPRPPYLASSDSWPHSDGSAQLPPRLGPGQLTWKNSERGLDW 276
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: 34,925,222
Number of extensions: 1036294
Number of successful extensions: 7177
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 6924
Number of HSP's successfully gapped: 3
Length of query: 349
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 247
Effective length of database: 12,553,887
Effective search space: 3100810089
Effective search space used: 3100810089
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-000838
(1049 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... 468 e-132
Alignment gi|XP_003359197.1| PREDICTED: rhomboid domain-containing protei... 50 3e-06
Alignment gi|XP_003359196.1| PREDICTED: rhomboid domain-containing protei... 50 3e-06
>ref|XP_003124448.2| PREDICTED: rhomboid domain-containing protein 2-like [Sus scrofa].
Length = 460
Score = 468 bits (1203), Expect = e-132
Identities = 228/233 (97%), Positives = 230/233 (98%)
Frame = +3
Query: 351 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 530
VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA
Sbjct: 164 VYRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEA 223
Query: 531 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 710
VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP
Sbjct: 224 VSKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP 283
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 890
QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER
Sbjct: 284 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 343
Query: 891 KAAHSPRLNPVPGSYPTQSGHPHLPPKHPVAQMQHASGQKLASWPSCAPGDMP 1049
+AAHS RLNPVPGSYPTQSGHPHLPP HPVAQMQHASGQKLASWP+CAPG MP
Sbjct: 344 RAAHSRRLNPVPGSYPTQSGHPHLPPNHPVAQMQHASGQKLASWPACAPGHMP 396
Score = 67.4 bits (163), Expect = 1e-11
Identities = 35/43 (81%), Positives = 35/43 (81%)
Frame = +1
Query: 97 VPSATFFTALLSLLVSGPRLFLLQPPLAPSGLSLRSEALRNWQ 225
VPSATFFTALLSLLVSGPRLFLLQ SLRSEALRNWQ
Sbjct: 121 VPSATFFTALLSLLVSGPRLFLLQXXXXXXXXSLRSEALRNWQ 163
>ref|XP_003359197.1| PREDICTED: rhomboid domain-containing protein 3 isoform 2 [Sus
scrofa].
Length = 365
Score = 49.7 bits (117), Expect = 3e-06
Identities = 55/209 (26%), Positives = 82/209 (39%), Gaps = 1/209 (0%)
Frame = +3
Query: 354 YRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAV 533
+RL+T+ + SLL +++ E +GT+R + + AL ++ + +
Sbjct: 30 HRLLTHALGHTALPSLLLSLLLLTTLGWRQECHLGTLRFLHASTLLALACGLMAVLLAGL 89
Query: 534 SKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP- 710
L G+ PV AML R R R +P L+PWLLL + L+
Sbjct: 90 G----LSRAAGGCGYMPVHLAMLAGQCYRLRQPRG-----AMPPWLLPWLLLALTPLLSS 140
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 890
+ FL CGL G+AY L+L E L + L + ++GS
Sbjct: 141 EPPFLQLFCGLLAGVAYAAGAFQWLELSERRLQALQEGV---------LCRALAGS---- 187
Query: 891 KAAHSPRLNPVPGSYPTQSGHPHLPPKHP 977
RL P PGS LP HP
Sbjct: 188 ---WPLRLLPTPGSL------AELPVTHP 207
>ref|XP_003359196.1| PREDICTED: rhomboid domain-containing protein 3 isoform 1 [Sus
scrofa].
Length = 386
Score = 49.7 bits (117), Expect = 3e-06
Identities = 55/209 (26%), Positives = 82/209 (39%), Gaps = 1/209 (0%)
Frame = +3
Query: 354 YRLVTYIFVYENPVSLLCGAIIIWRFAGNFERTVGTVRHCFFTVIFALCSAIIFLSFEAV 533
+RL+T+ + SLL +++ E +GT+R + + AL ++ + +
Sbjct: 51 HRLLTHALGHTALPSLLLSLLLLTTLGWRQECHLGTLRFLHASTLLALACGLMAVLLAGL 110
Query: 534 SKLSKLGEVEDARGFTPVAFAMLGVNSVRARMRRALVFGMVVPSMLVPWLLLCASWLIP- 710
L G+ PV AML R R R +P L+PWLLL + L+
Sbjct: 111 G----LSRAAGGCGYMPVHLAMLAGQCYRLRQPRG-----AMPPWLLPWLLLALTPLLSS 161
Query: 711 QTSFLSNVCGLGIGLAYGLTYCYSLDLPEHVALKLDQKFPFSLMRRISLFKYISGSSAER 890
+ FL CGL G+AY L+L E L + L + ++GS
Sbjct: 162 EPPFLQLFCGLLAGVAYAAGAFQWLELSERRLQALQEGV---------LCRALAGS---- 208
Query: 891 KAAHSPRLNPVPGSYPTQSGHPHLPPKHP 977
RL P PGS LP HP
Sbjct: 209 ---WPLRLLPTPGSL------AELPVTHP 228
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: 26,391,603
Number of extensions: 820701
Number of successful extensions: 6006
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 5903
Number of HSP's successfully gapped: 4
Length of query: 349
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 249
Effective length of database: 8,854,232
Effective search space: 2204703768
Effective search space used: 2204703768
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-000838
(1049 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... 805 0.0
>gb|GL892833.1| Sus scrofa unplaced genomic scaffold chrU_scaffold1659
Length = 73733
Score = 805 bits (406), Expect = 0.0
Identities = 409/410 (99%)
Strand = Plus / Plus
Query: 350 agtttacaggctggtgacctacatctttgtctacgagaaccccgtctccctgctctgcgg 409
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47458 agtttacaggctggtgacctacatctttgtctacgagaaccccgtctccctgctctgcgg 47517
Query: 410 cgctatcatcatctggcgctttgctggcaattttgagagaaccgtgggcacggtccgcca 469
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47518 cgctatcatcatctggcgctttgctggcaattttgagagaaccgtgggcacggtccgcca 47577
Query: 470 ctgcttcttcaccgtgatcttcgccctctgctctgccatcatcttcctgtcctttgaagc 529
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47578 ctgcttcttcaccgtgatcttcgccctctgctctgccatcatcttcctgtcctttgaagc 47637
Query: 530 tgtgtcgaagctgtcgaagctgggggaggtggaggacgccagaggcttcaccccggtggc 589
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47638 tgtgtcgaagctgtcgaagctgggggaggtggaggacgccagaggcttcaccccggtggc 47697
Query: 590 ttttgccatgctgggcgtcaactccgtccgcgctcggatgcggcgggccctggtgtttgg 649
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 47698 ttttgccatgctgggcgtcaactccgtccgcgctcggatgaggcgggccctggtgtttgg 47757
Query: 650 catggtggtgccctcgatgctggtgccgtggctcctgctctgtgcctcctggctcattcc 709
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47758 catggtggtgccctcgatgctggtgccgtggctcctgctctgtgcctcctggctcattcc 47817
Query: 710 ccagacctctttcctcagcaacgtctgtggacttggaattgggctggcgt 759
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47818 ccagacctctttcctcagcaacgtctgtggacttggaattgggctggcgt 47867
Score = 285 bits (144), Expect = 2e-74
Identities = 150/152 (98%)
Strand = Plus / Plus
Query: 760 acggcctcacgtactgctactcccttgacctgccggagcacgtggccctgaagctcgacc 819
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51614 acggcctcacgtactgctactcccttgacctgccggagcacgtggccctgaagctcgacc 51673
Query: 820 agaagttccccttcagcctgatgaggaggatttcgctgttcaagtacatctcaggctctt 879
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51674 agaagttccccttcagcctgatgaggaggatttcgctgttcaagtacatctcaggctctt 51733
Query: 880 cggccgagagaaaggcggcccacagcccgagg 911
|||||||||||| |||||||||||||| ||||
Sbjct: 51734 cggccgagagaagggcggcccacagccggagg 51765
Score = 252 bits (127), Expect = 3e-64
Identities = 127/127 (100%)
Strand = Plus / Plus
Query: 225 agccactatggaaggagaggtcaggattacagccgaggagacgggcacaaagagtgttaa 284
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 46987 agccactatggaaggagaggtcaggattacagccgaggagacgggcacaaagagtgttaa 47046
Query: 285 gtgacacccactcaatccacctgaagctgttacaattaattaaccctcacactgcccggt 344
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47047 gtgacacccactcaatccacctgaagctgttacaattaattaaccctcacactgcccggt 47106
Query: 345 gagatag 351
|||||||
Sbjct: 47107 gagatag 47113
Score = 232 bits (117), Expect = 3e-58
Identities = 135/141 (95%)
Strand = Plus / Plus
Query: 909 aggctgaaccctgtgcccggctcctaccccacacagagcggccaccctcacctgcccccg 968
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 54620 aggctgaaccctgtgcccggctcctaccccacacagagcggccaccctcacctgcccccg 54679
Query: 969 aaacaccctgtcgcccagatgcagcatgccagtgggcagaaactcgcatcctggcccagc 1028
|| |||||||||||||||||||||||||||||||| |||||||||||||||||||| |
Sbjct: 54680 aaccaccctgtcgcccagatgcagcatgccagtggccagaaactcgcatcctggccagcc 54739
Query: 1029 tgcgctcctggggacatgccc 1049
|||||||||||| ||||||||
Sbjct: 54740 tgcgctcctgggcacatgccc 54760
Score = 151 bits (76), Expect = 9e-34
Identities = 76/76 (100%)
Strand = Plus / Plus
Query: 96 ggtgccatccgccaccttcttcaccgcgctgctctcgctgctggtgtccgggccccgcct 155
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 45084 ggtgccatccgccaccttcttcaccgcgctgctctcgctgctggtgtccgggccccgcct 45143
Query: 156 gttcctgctgcagccg 171
||||||||||||||||
Sbjct: 45144 gttcctgctgcagccg 45159
Score = 69.9 bits (35), Expect = 3e-09
Identities = 35/35 (100%)
Strand = Plus / Plus
Query: 192 ctcgctgcggtccgaggccctgcgcaactggcaag 226
|||||||||||||||||||||||||||||||||||
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: 23,882,438
Number of extensions: 119
Number of successful extensions: 119
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 6
Length of query: 1049
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1028
Effective length of database: 2,808,413,156
Effective search space: 2887048724368
Effective search space used: 2887048724368
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)