BLAST2 result
TBLASTN 2.2.2 [Dec-14-2001]
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= TM0237.11
(176 letters)
Database: GMGI
63,676 sequences; 37,918,896 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
TC226861 UP|RPB7_SOYBN (P46279) DNA-directed RNA polymerase II 1... 352 4e-98
TC226860 UP|RPB7_SOYBN (P46279) DNA-directed RNA polymerase II 1... 304 1e-83
TC226862 UP|RPB7_SOYBN (P46279) DNA-directed RNA polymerase II 1... 144 3e-35
TC208600 similar to UP|O23322 (O23322) RNA polymerase II fifth l... 90 6e-19
BI969358 SP|P46279|RPB7 DNA-directed RNA polymerase II 19 kDa po... 42 1e-04
TC208485 similar to UP|Q96424 (Q96424) O-methyltransferase, part... 28 2.9
TC208486 similar to UP|Q96424 (Q96424) O-methyltransferase, part... 27 3.8
TC204093 similar to UP|ROC1_NICSY (Q08935) 29 kDa ribonucleoprot... 27 5.0
CA851845 weakly similar to PIR|S51590|S515 mitochondrial process... 26 8.5
CD404295 26 8.5
>TC226861 UP|RPB7_SOYBN (P46279) DNA-directed RNA polymerase II 19 kDa
polypeptide (RNA polymerase II subunit 5) , complete
Length = 976
Score = 352 bits (904), Expect = 4e-98
Identities = 171/176 (97%), Positives = 174/176 (98%)
Frame = +3
Query: 1 MFFHIVLERNMQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIR 60
MFFHIVLERNMQLHPRYFGRNLRDNLV+KLMKDVEGTCSGRHGFVVAVTGIEN+GKGLIR
Sbjct: 189 MFFHIVLERNMQLHPRYFGRNLRDNLVSKLMKDVEGTCSGRHGFVVAVTGIENIGKGLIR 368
Query: 61 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 120
DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ
Sbjct: 369 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 548
Query: 121 SGDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDPVAI 176
SGDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDP +
Sbjct: 549 SGDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDPATV 716
>TC226860 UP|RPB7_SOYBN (P46279) DNA-directed RNA polymerase II 19 kDa
polypeptide (RNA polymerase II subunit 5) , partial
(85%)
Length = 572
Score = 304 bits (779), Expect = 1e-83
Identities = 148/150 (98%), Positives = 150/150 (99%)
Frame = +1
Query: 1 MFFHIVLERNMQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIR 60
MFFHIVLERNMQLHPRYFGRNLRDNLV+KLMKDVEGTCSGRHGFVVAVTGIEN+GKGLIR
Sbjct: 121 MFFHIVLERNMQLHPRYFGRNLRDNLVSKLMKDVEGTCSGRHGFVVAVTGIENIGKGLIR 300
Query: 61 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 120
DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ
Sbjct: 301 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 480
Query: 121 SGDMPNYTTSDGSVKIQKDSEVRLKIIGTR 150
SGDMPNYTTSDGSVKIQKDSEVRLKIIGTR
Sbjct: 481 SGDMPNYTTSDGSVKIQKDSEVRLKIIGTR 570
>TC226862 UP|RPB7_SOYBN (P46279) DNA-directed RNA polymerase II 19 kDa
polypeptide (RNA polymerase II subunit 5) , partial
(39%)
Length = 421
Score = 144 bits (362), Expect = 3e-35
Identities = 67/69 (97%), Positives = 69/69 (99%)
Frame = +1
Query: 1 MFFHIVLERNMQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIR 60
MFFHIVLERNMQLHPRYFGRNLRDNLV+KLMKDVEGTCSGRHGFVVAVTGIEN+GKGLIR
Sbjct: 214 MFFHIVLERNMQLHPRYFGRNLRDNLVSKLMKDVEGTCSGRHGFVVAVTGIENIGKGLIR 393
Query: 61 DGTGFVTFP 69
DGTGFVTFP
Sbjct: 394 DGTGFVTFP 420
>TC208600 similar to UP|O23322 (O23322) RNA polymerase II fifth largest
subunit like protein, partial (96%)
Length = 992
Score = 89.7 bits (221), Expect = 6e-19
Identities = 61/166 (36%), Positives = 92/166 (54%), Gaps = 3/166 (1%)
Frame = +2
Query: 11 MQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIRDGTGFVTFPV 70
+ LH R L D V K KD+ G+ +AVT +E +G+G +R TG V FPV
Sbjct: 128 LMLHRAIIVRLLSDFAVKKATKDL--------GYFLAVTTLEKIGEGKVRQHTGDVLFPV 283
Query: 71 KYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQ-IFVSNHLIPDDMEFQSGDMPNYTT 129
+ + F+ FKGEILE VV V K G F GP++ +++SN +P D + G+ +
Sbjct: 284 VFNVITFKFFKGEILEGVVHKVLKHGVFMRCGPIENVYLSNLKMP-DYRYVPGENACF-M 457
Query: 130 SDGSVKIQKDSEVRLKIIGTR-VDATEIF-CIGTIKDDFLGVINDP 173
+D KI KD VR +IGT+ ++A F + +++ D+LG I+ P
Sbjct: 458 NDKMSKIGKDVTVRFSVIGTKWMEAEREFQALVSLEGDYLGPISTP 595
>BI969358 SP|P46279|RPB7 DNA-directed RNA polymerase II 19 kDa polypeptide
(EC 2.7.7.6) (RNA polymerase II subunit 5)., partial
(11%)
Length = 687
Score = 42.0 bits (97), Expect = 1e-04
Identities = 17/20 (85%), Positives = 18/20 (90%)
Frame = -1
Query: 157 FCIGTIKDDFLGVINDPVAI 176
FCIGTIKDDFLGVINDP +
Sbjct: 255 FCIGTIKDDFLGVINDPATV 196
>TC208485 similar to UP|Q96424 (Q96424) O-methyltransferase, partial (68%)
Length = 830
Score = 27.7 bits (60), Expect = 2.9
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Frame = +1
Query: 15 PRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIRDG--------TGFV 66
P R LR L+A T + HG V G+ VG+ + DG T FV
Sbjct: 250 PNRLDRMLR--LLASYSVLTTSTRTTHHGATETVYGLSQVGQYFVPDGTRGYLASFTAFV 423
Query: 67 TFPVKYQCVVFRPFKGEILEAVVTMVNKM 95
+P Q V+ FK +++A + + K+
Sbjct: 424 CYPPLLQ--VWLNFKEAMVDADIDLFKKI 504
Score = 26.2 bits (56), Expect = 8.5
Identities = 14/43 (32%), Positives = 22/43 (50%)
Frame = +1
Query: 84 ILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQSGDMPN 126
+L A + + N A+A P F+S+H I + Q D+PN
Sbjct: 130 VLNAAIEL-NLFEIIAKATPAGSFMSSHEIASKLPTQHPDLPN 255
>TC208486 similar to UP|Q96424 (Q96424) O-methyltransferase, partial (35%)
Length = 459
Score = 27.3 bits (59), Expect = 3.8
Identities = 14/43 (32%), Positives = 22/43 (50%)
Frame = +3
Query: 84 ILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQSGDMPN 126
+L A + + N A+A P F+S+H I + Q D+PN
Sbjct: 150 VLNAAIEL-NLFEIIAKATPAGTFISSHEIASKLPTQHPDLPN 275
>TC204093 similar to UP|ROC1_NICSY (Q08935) 29 kDa ribonucleoprotein A,
chloroplast precursor (CP29A), partial (63%)
Length = 1403
Score = 26.9 bits (58), Expect = 5.0
Identities = 9/14 (64%), Positives = 12/14 (85%)
Frame = -2
Query: 33 DVEGTCSGRHGFVV 46
+ EG+C GRHGF+V
Sbjct: 103 ECEGSCGGRHGFLV 62
>CA851845 weakly similar to PIR|S51590|S515 mitochondrial processing
peptidase (EC 3.4.24.64) alpha-II chain precursor -
potato, partial (9%)
Length = 435
Score = 26.2 bits (56), Expect = 8.5
Identities = 11/32 (34%), Positives = 20/32 (62%)
Frame = +1
Query: 67 TFPVKYQCVVFRPFKGEILEAVVTMVNKMGFF 98
+FP+KY+C++ R F +L ++N + FF
Sbjct: 274 SFPLKYKCMISRHFPSFVL---CQVINSLYFF 360
>CD404295
Length = 642
Score = 26.2 bits (56), Expect = 8.5
Identities = 16/43 (37%), Positives = 21/43 (48%)
Frame = -2
Query: 61 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGP 103
D GF+ + C V K E LEA+ + VNK+ FA P
Sbjct: 482 DRVGFL-----FVCEVEDSGKQESLEALTSQVNKLAHFARFAP 369
Database: GMGI
Posted date: Oct 22, 2004 4:58 PM
Number of letters in database: 37,918,896
Number of sequences in database: 63,676
Lambda K H
0.325 0.144 0.428
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,675,541
Number of Sequences: 63676
Number of extensions: 76612
Number of successful extensions: 387
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 386
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 387
length of query: 176
length of database: 12,639,632
effective HSP length: 91
effective length of query: 85
effective length of database: 6,845,116
effective search space: 581834860
effective search space used: 581834860
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)
Lotus: description of TM0237.11