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= TM0592.7
(116 letters)
Database: GMGI
63,676 sequences; 37,918,896 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
BF596070 similar to GP|27901698|gb gag-pol polyprotein {Vitis vi... 110 1e-25
TC204438 homologue to UP|Q84VH6 (Q84VH6) Gag-pol polyprotein, co... 100 8e-23
AI855818 weakly similar to GP|21741393|e OSJNBb0051N19.6 {Oryza ... 100 8e-23
TC204439 UP|Q84VI4 (Q84VI4) Gag-pol polyprotein, complete 100 8e-23
CO983516 89 3e-19
TC234303 weakly similar to UP|Q8W153 (Q8W153) Polyprotein, parti... 74 8e-15
NP005250 reverse transcriptase 71 8e-14
CA784773 weakly similar to GP|27901698|gb gag-pol polyprotein {V... 71 8e-14
BM307983 69 2e-13
AI959950 69 2e-13
NP005470 reverse transcriptase 68 5e-13
BI469652 weakly similar to GP|18149115|dbj| reverse transcriptas... 50 4e-09
BF596801 weakly similar to GP|29423270|g gag-pol polyprotein {Gl... 52 3e-08
BF595216 50 2e-07
BQ081067 weakly similar to GP|23495377|dbj orf490 {Oryza sativa ... 40 1e-04
TC232995 39 4e-04
TC235047 similar to UP|Q8LSK0 (Q8LSK0) Gag and Pol, partial (4%) 34 0.001
BM188122 weakly similar to PIR|I46200|I4620 retrovirus-related r... 33 0.025
TC223980 weakly similar to UP|Q9ASW0 (Q9ASW0) At1g27150/T7N9_21,... 30 0.22
TC216583 weakly similar to UP|Q7XBC0 (Q7XBC0) ThiJ-like protein,... 28 0.82
>BF596070 similar to GP|27901698|gb gag-pol polyprotein {Vitis vinifera},
partial (34%)
Length = 407
Score = 110 bits (275), Expect = 1e-25
Identities = 50/97 (51%), Positives = 75/97 (76%)
Frame = -2
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPE 65
+TQ GI Y DT++PVA++TT+R+ LA+A++ + +HQ+D+K AFL+G+L+E++YM+QP
Sbjct: 295 YTQVYGIDYCDTFSPVAKLTTVRLFLAMAAICHWPLHQLDIKNAFLHGDLEEDIYMEQPP 116
Query: 66 GFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQVV 102
GFV +G+ VCKL +SLY LKQ+P + W KF VV
Sbjct: 115 GFVAQGEYGLVCKLHRSLYGLKQSP-RAWFGKFSHVV 8
>TC204438 homologue to UP|Q84VH6 (Q84VH6) Gag-pol polyprotein, complete
Length = 4734
Score = 100 bits (250), Expect = 8e-23
Identities = 49/109 (44%), Positives = 75/109 (67%)
Frame = +1
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPE 65
+TQ EG+ + +T+APVAR+ +IR+LL +A + KF ++QMDVK+AFLNG L+EE Y++QP+
Sbjct: 3412 YTQIEGVDFDETFAPVARLESIRLLLGVACILKFKLYQMDVKSAFLNGYLNEEAYVEQPK 3591
Query: 66 GFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQVVLAHEYKINEFDK 114
GFV V +L K+LY LKQ P + W+++ + + Y+ DK
Sbjct: 3592 GFVDPTHPDHVYRLKKALYGLKQAP-RAWYERLTEFLTQQGYRKGGIDK 3735
>AI855818 weakly similar to GP|21741393|e OSJNBb0051N19.6 {Oryza sativa
(japonica cultivar-group)}, partial (10%)
Length = 463
Score = 100 bits (250), Expect = 8e-23
Identities = 50/98 (51%), Positives = 69/98 (70%)
Frame = -3
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPE 65
+ Q+EGI Y +TYAPVAR+ IR+LLA S+ F ++QMDVK+AFLNG + EEVY++QP
Sbjct: 296 YNQEEGIDYEETYAPVARLEVIRMLLAYVSIMNFKLYQMDVKSAFLNGLIQEEVYVEQPP 117
Query: 66 GFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQVVL 103
GF I + V KL K+LY LKQ P + W+++ +L
Sbjct: 116 GFEIPDKPTHVYKLQKALYGLKQAP-RAWYERISNFLL 6
>TC204439 UP|Q84VI4 (Q84VI4) Gag-pol polyprotein, complete
Length = 4731
Score = 100 bits (250), Expect = 8e-23
Identities = 49/109 (44%), Positives = 75/109 (67%)
Frame = +1
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPE 65
+TQ EG+ + +T+APVAR+ +IR+LL +A + KF ++QMDVK+AFLNG L+EEVY++QP+
Sbjct: 3409 YTQIEGVDFDETFAPVARLESIRLLLGVACILKFKLYQMDVKSAFLNGYLNEEVYVEQPK 3588
Query: 66 GFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQVVLAHEYKINEFDK 114
GF V +L K+LY LKQ P + W+++ + + Y+ DK
Sbjct: 3589 GFADPTHPDHVYRLKKALYGLKQAP-RAWYERLTEFLTQQGYRKGGIDK 3732
>CO983516
Length = 724
Score = 89.0 bits (219), Expect = 3e-19
Identities = 43/97 (44%), Positives = 67/97 (68%)
Frame = +2
Query: 18 YAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPEGFVIKGQVQKVC 77
+ PVAR+ +IR+LL +A + KF ++QMDVK+AFLNG L+EEVY++QP+GF+ V
Sbjct: 365 FHPVARLESIRLLLGVACILKFKLYQMDVKSAFLNGYLNEEVYVEQPKGFIDPTHPDHVY 544
Query: 78 KLTKSLYELKQTPKKKWHQKFDQVVLAHEYKINEFDK 114
+L K+LY LKQ P + W+++ +++ Y+ DK
Sbjct: 545 RLKKALYGLKQAP-RAWYERLTELLTQQGYRKGGIDK 652
>TC234303 weakly similar to UP|Q8W153 (Q8W153) Polyprotein, partial (10%)
Length = 558
Score = 74.3 bits (181), Expect = 8e-15
Identities = 37/87 (42%), Positives = 59/87 (67%), Gaps = 1/87 (1%)
Frame = +1
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPE 65
+TQ G Y T++PVA++ + +L ++A + + + +D K AFL+G L+EEVYM+QP
Sbjct: 70 YTQVYGQDYTGTFSPVAKMAYVHLLWSMAVVCHWPLF*LDAKNAFLHGYLEEEVYMEQPL 249
Query: 66 GFVIKGQVQK-VCKLTKSLYELKQTPK 91
GFV +G+ VC+L +S Y LKQ+P+
Sbjct: 250 GFVAQGESSNMVCQLCRSFYGLKQSPR 330
>NP005250 reverse transcriptase
Length = 243
Score = 70.9 bits (172), Expect = 8e-14
Identities = 31/67 (46%), Positives = 46/67 (68%)
Frame = +1
Query: 50 FLNGELDEEVYMKQPEGFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQVVLAHEYKI 109
FLNG+++E +YM QPE FV+ VCKL KS+Y+LKQ ++W+ KF QV+ ++ ++
Sbjct: 4 FLNGDIEETIYMVQPENFVLGDSKSMVCKLKKSIYDLKQV-SRQWYYKFHQVITSYGFEA 180
Query: 110 NEFDKCV 116
N D CV
Sbjct: 181 NVVDDCV 201
>CA784773 weakly similar to GP|27901698|gb gag-pol polyprotein {Vitis
vinifera}, partial (34%)
Length = 409
Score = 70.9 bits (172), Expect = 8e-14
Identities = 29/59 (49%), Positives = 48/59 (81%)
Frame = +3
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQP 64
+TQ GI Y DT++PV +TT+R+ LA+A++ + +HQ+D+K AFL+G+L+E++YM+QP
Sbjct: 228 YTQVYGIEYCDTFSPVFFLTTVRLFLAMAAIRHWPLHQLDIKNAFLHGDLEEDIYMEQP 404
>BM307983
Length = 406
Score = 69.3 bits (168), Expect = 2e-13
Identities = 34/68 (50%), Positives = 46/68 (67%)
Frame = +2
Query: 41 IHQMDVKTAFLNGELDEEVYMKQPEGFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQ 100
+HQ DVK AFL+G L+EEVYM+ P G+ KVC+L K+LY LKQ+P + W +F Q
Sbjct: 194 MHQFDVKNAFLHGSLEEEVYMEIPPGYGASNGGNKVCRLKKALYGLKQSP-RAWFGRFTQ 370
Query: 101 VVLAHEYK 108
+L+ YK
Sbjct: 371 AMLSLGYK 394
>AI959950
Length = 466
Score = 69.3 bits (168), Expect = 2e-13
Identities = 36/76 (47%), Positives = 52/76 (68%)
Frame = -1
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPE 65
++Q+EGI Y T+A VAR+ I +LL+ A+ ++QMDVK+AFLNG + +EVY++QP
Sbjct: 229 YSQQEGIDYPKTFALVARLEVICILLSFATYSNMKLYQMDVKSAFLNGLIQKEVYVEQPP 50
Query: 66 GFVIKGQVQKVCKLTK 81
GF + Q V KL K
Sbjct: 49 GFENETLHQHVFKLNK 2
>NP005470 reverse transcriptase
Length = 267
Score = 68.2 bits (165), Expect = 5e-13
Identities = 31/70 (44%), Positives = 49/70 (69%)
Frame = +1
Query: 47 KTAFLNGELDEEVYMKQPEGFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQVVLAHE 106
+TAFL+G L+E + MKQPEGF ++G+ + V +L +SLY LKQ+P ++W+ FD +
Sbjct: 1 RTAFLHGRLEENILMKQPEGFEVQGKERYVSQLQRSLYGLKQSP-RQWYMSFDSFITNQG 177
Query: 107 YKINEFDKCV 116
+K + +D CV
Sbjct: 178 FKRSLYDCCV 207
>BI469652 weakly similar to GP|18149115|dbj| reverse transcriptase {Silene
noctiflora}, partial (60%)
Length = 427
Score = 50.1 bits (118), Expect(2) = 4e-09
Identities = 23/50 (46%), Positives = 33/50 (66%)
Frame = +3
Query: 41 IHQMDVKTAFLNGELDEEVYMKQPEGFVIKGQVQKVCKLTKSLYELKQTP 90
+ QMD+K+ FLN ++EEVY++QP FV + + KL K+ Y LKQ P
Sbjct: 249 LFQMDIKSGFLNDFIEEEVYVRQPPNFVDHTLLDHIFKLQKASYGLKQAP 398
Score = 25.0 bits (53), Expect(2) = 4e-09
Identities = 11/19 (57%), Positives = 14/19 (72%)
Frame = +2
Query: 17 TYAPVARITTIRVLLALAS 35
T+AP+AR+ IRV L L S
Sbjct: 176 TFAPIARLEAIRVKLFLCS 232
>BF596801 weakly similar to GP|29423270|g gag-pol polyprotein {Glycine max},
partial (7%)
Length = 336
Score = 52.4 bits (124), Expect = 3e-08
Identities = 24/41 (58%), Positives = 32/41 (77%)
Frame = +3
Query: 6 FTQKEGIGYFDTYAPVARITTIRVLLALASLYKFVIHQMDV 46
+ Q+EGI Y +TYAPVAR+ IR+LLA AS+ F ++QMDV
Sbjct: 213 YNQEEGIDYEETYAPVARLEAIRMLLAYASIMNFKLYQMDV 335
>BF595216
Length = 421
Score = 49.7 bits (117), Expect = 2e-07
Identities = 26/48 (54%), Positives = 32/48 (66%)
Frame = +3
Query: 37 YKFVIHQMDVKTAFLNGELDEEVYMKQPEGFVIKGQVQKVCKLTKSLY 84
Y + I Q+DV AFLNG L EEVYM+QP GF + VCKL K++Y
Sbjct: 279 YHWPIQQLDVNNAFLNGILQEEVYMQQPPGFDSTTK-SLVCKLHKAIY 419
>BQ081067 weakly similar to GP|23495377|dbj orf490 {Oryza sativa (japonica
cultivar-group)}, partial (18%)
Length = 430
Score = 40.4 bits (93), Expect = 1e-04
Identities = 20/42 (47%), Positives = 28/42 (66%)
Frame = +3
Query: 26 TIRVLLALASLYKFVIHQMDVKTAFLNGELDEEVYMKQPEGF 67
TIR++L +A + + Q+D+ AFL+G L EEVYM Q GF
Sbjct: 300 TIRLILFIALTNHWPLQQVDINNAFLHGLLTEEVYMVQLPGF 425
>TC232995
Length = 1009
Score = 38.9 bits (89), Expect = 4e-04
Identities = 19/53 (35%), Positives = 30/53 (55%)
Frame = +2
Query: 61 MKQPEGFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQVVLAHEYKINEFD 113
++QP GF I + V KL K+LY LKQ P + W+++ +L E+ + D
Sbjct: 2 VEQPPGFEISDKPNHVYKLQKALYGLKQAP-RAWYERLSNFLLEKEFSRGKVD 157
>TC235047 similar to UP|Q8LSK0 (Q8LSK0) Gag and Pol, partial (4%)
Length = 504
Score = 33.9 bits (76), Expect(2) = 0.001
Identities = 14/29 (48%), Positives = 21/29 (72%)
Frame = +1
Query: 88 QTPKKKWHQKFDQVVLAHEYKINEFDKCV 116
+T K QKFD V+L ++++IN+ DKCV
Sbjct: 217 ETSSKALTQKFD*VILLYDFQINDSDKCV 303
Score = 22.3 bits (46), Expect(2) = 0.001
Identities = 9/13 (69%), Positives = 10/13 (76%)
Frame = +2
Query: 79 LTKSLYELKQTPK 91
+ KSLY LKQ PK
Sbjct: 194 IVKSLYGLKQAPK 232
>BM188122 weakly similar to PIR|I46200|I4620 retrovirus-related reverse
transcriptase homolog - pine (Pinus coulteri)
retrotransposon copia-like, partial (53%)
Length = 420
Score = 32.7 bits (73), Expect = 0.025
Identities = 17/37 (45%), Positives = 22/37 (58%)
Frame = +2
Query: 64 PEGFVIKGQVQKVCKLTKSLYELKQTPKKKWHQKFDQ 100
PEG +KGQ +KV L K+L L Q P W+ FD+
Sbjct: 5 PEGCKVKGQEEKVY*LKKALNGLNQAP-TAWYNMFDE 112
>TC223980 weakly similar to UP|Q9ASW0 (Q9ASW0) At1g27150/T7N9_21, partial
(14%)
Length = 668
Score = 29.6 bits (65), Expect = 0.22
Identities = 10/25 (40%), Positives = 17/25 (68%)
Frame = -3
Query: 83 LYELKQTPKKKWHQKFDQVVLAHEY 107
++++ Q +WH+ DQV+LAH Y
Sbjct: 318 VHQMPQ*SYNQWHRNLDQVILAHAY 244
>TC216583 weakly similar to UP|Q7XBC0 (Q7XBC0) ThiJ-like protein, partial
(80%)
Length = 1327
Score = 27.7 bits (60), Expect = 0.82
Identities = 9/29 (31%), Positives = 19/29 (65%)
Frame = -2
Query: 69 IKGQVQKVCKLTKSLYELKQTPKKKWHQK 97
+ GQ C++T L+ ++QTP+ K +++
Sbjct: 306 VSGQFLHQCRITSRLFPIQQTPRPKHYRR 220
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
0.328 0.143 0.426
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,299,665
Number of Sequences: 63676
Number of extensions: 45305
Number of successful extensions: 279
Number of sequences better than 10.0: 52
Number of HSP's better than 10.0 without gapping: 276
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): 277
length of query: 116
length of database: 12,639,632
effective HSP length: 92
effective length of query: 24
effective length of database: 6,781,440
effective search space: 162754560
effective search space used: 162754560
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.3 bits)
Lotus: description of TM0592.7