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: MTGI
36,976 sequences; 27,044,181 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
TC79427 homologue to SP|P46279|RPB7_SOYBN DNA-directed RNA polym... 350 1e-97
TC85366 similar to PIR|C71409|C71409 probable RNA polymerase II ... 79 1e-15
TC87360 50 5e-07
TC90068 similar to GP|20197988|gb|AAD22321.2 expressed protein {... 30 0.38
TC78606 similar to GP|5031283|gb|AAD38147.1| unknown {Prunus arm... 27 3.2
AW585068 26 9.3
TC87532 similar to GP|21537285|gb|AAM61626.1 unknown {Arabidopsi... 26 9.3
>TC79427 homologue to SP|P46279|RPB7_SOYBN DNA-directed RNA polymerase II 19
kDa polypeptide (EC 2.7.7.6) (RNA polymerase II subunit
5)., complete
Length = 804
Score = 350 bits (899), Expect = 1e-97
Identities = 169/176 (96%), Positives = 174/176 (98%)
Frame = +2
Query: 1 MFFHIVLERNMQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIR 60
MFFHIVLERNMQLHPRYFGRNLRDNLV+KLMKDVEGTCSGRHGFVVAVTGIEN+GKG+IR
Sbjct: 50 MFFHIVLERNMQLHPRYFGRNLRDNLVSKLMKDVEGTCSGRHGFVVAVTGIENIGKGIIR 229
Query: 61 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 120
DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ
Sbjct: 230 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 409
Query: 121 SGDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDPVAI 176
+GDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDP +
Sbjct: 410 TGDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDPATV 577
>TC85366 similar to PIR|C71409|C71409 probable RNA polymerase II fifth
largest subunit - Arabidopsis thaliana, partial (88%)
Length = 780
Score = 78.6 bits (192), Expect = 1e-15
Identities = 56/157 (35%), Positives = 87/157 (54%), Gaps = 3/157 (1%)
Frame = +3
Query: 20 RNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIRDGTGFVTFPVKYQCVVFRP 79
R L D K KD+ G+ +AVT ++ +G+G +R TG V FPV + V F+
Sbjct: 204 RLLSDFAAKKATKDM--------GYFLAVTTLDKIGEGKVRQHTGDVLFPVVFNAVTFKI 359
Query: 80 FKGEILEAVVTMVNKMGFFAEAGPVQ-IFVSNHLIPDDMEFQSGDMPNYTTSDGSVKIQK 138
FKGE+LE VV V K G F GP++ ++S+ +P + + G+ P Y + KI K
Sbjct: 360 FKGEVLEGVVHKVLKHGVFMRIGPIENAYLSSSKMPGYV-YVLGENP-YFMNQKMPKIAK 533
Query: 139 DSEVRLKIIGTR-VDATEIF-CIGTIKDDFLGVINDP 173
D +VR+ +IGT+ ++A F + ++ D+LG I P
Sbjct: 534 DVKVRVVVIGTKWMEAEREFQALVGLEGDYLGPIFIP 644
>TC87360
Length = 964
Score = 50.1 bits (118), Expect = 5e-07
Identities = 37/158 (23%), Positives = 70/158 (43%), Gaps = 11/158 (6%)
Frame = +2
Query: 1 MFFHIVLERNMQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIR 60
MF+ +E L P R +R+ + ++L + + G ++V I ++ G I
Sbjct: 71 MFYLSKIEHKFALPPHLLARPIREAIQSELERLFLDKVIQKLGLCISVYDITSIEGGSIF 250
Query: 61 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVN------KMGFFAEAGPVQIFVSNHLIP 114
G G T+ V + ++FRPF GEI+ A V ++ +GFF + I++ H +P
Sbjct: 251 PGAGAPTYQVVFNLIMFRPFPGEIISAKVMSLDADGVRLSLGFFED-----IYIPTHHMP 415
Query: 115 DDMEFQSGDMP-----NYTTSDGSVKIQKDSEVRLKII 147
+ S + Y I+ +E+R +++
Sbjct: 416 YPSYYISKNNTRKWTWEYGEETDEFNIEISNEIRFQVL 529
>TC90068 similar to GP|20197988|gb|AAD22321.2 expressed protein {Arabidopsis
thaliana}, partial (88%)
Length = 1352
Score = 30.4 bits (67), Expect = 0.38
Identities = 13/39 (33%), Positives = 23/39 (58%)
Frame = -1
Query: 122 GDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIG 160
G +PN T +G +K+ K ++++ G +V A E C+G
Sbjct: 224 GLIPNPTQPEGEMKVPKKISSKVEL*GCKVHAIEACCVG 108
>TC78606 similar to GP|5031283|gb|AAD38147.1| unknown {Prunus armeniaca},
partial (43%)
Length = 630
Score = 27.3 bits (59), Expect = 3.2
Identities = 17/45 (37%), Positives = 23/45 (50%), Gaps = 1/45 (2%)
Frame = +3
Query: 114 PDDMEFQSGDMPNYTTS-DGSVKIQKDSEVRLKIIGTRVDATEIF 157
P D +SGD NYT I KD VR +++ + DA+E F
Sbjct: 123 PPDHTNESGDATNYTIPFIDLANIDKDPCVRKRVVESVRDASETF 257
>AW585068
Length = 513
Score = 25.8 bits (55), Expect = 9.3
Identities = 11/21 (52%), Positives = 13/21 (61%)
Frame = +1
Query: 14 HPRYFGRNLRDNLVAKLMKDV 34
HP + G+NL DNLV L V
Sbjct: 31 HPHFDGKNLEDNLVHALAPTV 93
>TC87532 similar to GP|21537285|gb|AAM61626.1 unknown {Arabidopsis thaliana},
partial (84%)
Length = 1411
Score = 25.8 bits (55), Expect = 9.3
Identities = 10/26 (38%), Positives = 17/26 (64%)
Frame = +2
Query: 138 KDSEVRLKIIGTRVDATEIFCIGTIK 163
+DS +L I+G ++ AT +FC +K
Sbjct: 1121 RDSSFQLDIVGLKLFATRLFCFIWVK 1198
Database: MTGI
Posted date: Oct 22, 2004 3:39 PM
Number of letters in database: 27,044,181
Number of sequences in database: 36,976
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: 4,767,322
Number of Sequences: 36976
Number of extensions: 55983
Number of successful extensions: 262
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 262
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): 262
length of query: 176
length of database: 9,014,727
effective HSP length: 90
effective length of query: 86
effective length of database: 5,686,887
effective search space: 489072282
effective search space used: 489072282
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