Last updated: 2022/11/18
BLASTP 2.2.12 [Aug-07-2005]
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= BGIBMGA001898-TA|BGIBMGA001898-PA|IPR000783|RNA polymerase
subunit, RPB5, IPR009026|RNA polymerase subunit, RPB5/RPB6-like,
IPR005571|RNA polymerase Rpb5, N-terminal
(162 letters)
Database: rice
37,544 sequences; 14,793,348 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
04_04_0314 - 24328019-24328144,24329027-24329062,24329780-243298... 145 2e-35
01_06_1059 - 34156139-34156238,34157113-34157189,34158146-341582... 139 1e-33
12_01_0261 - 1917149-1917274,1917809-1917922,1918155-1918331,191... 92 2e-19
11_01_0263 - 1998399-1998524,1999055-1999168,1999400-1999576,200... 92 2e-19
10_02_0192 + 6517985-6518348,6518647-6518699,6519984-6520021,652... 29 2.4
11_06_0060 - 19695338-19695477,19695641-19695734,19695818-196959... 27 5.5
03_02_0488 - 8824980-8825267,8825364-8827775 27 5.5
02_05_0840 - 32118332-32118376,32118420-32118531,32119074-321191... 27 7.3
10_08_0813 + 20774622-20774931,20775461-20775828,20776547-207767... 27 9.6
>04_04_0314 -
24328019-24328144,24329027-24329062,24329780-24329893,
24329997-24330176,24330313-24330510
Length = 217
Score = 145 bits (351), Expect = 2e-35
Identities = 73/163 (44%), Positives = 110/163 (67%), Gaps = 7/163 (4%)
Query: 1 MDDDAETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIV 60
M + ET +L+RIR+TVMQ+ DRGYLVT+ ++D F +FGD P D +V
Sbjct: 1 MASEEETSRLFRIRRTVMQMLRDRGYLVTELDIDLPRGDFVARFGD------PVDRDHLV 54
Query: 61 LVAHN-DDPTDQMFVFFPDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLV 119
H D+ DQ++VFFP +AK G+KTI++Y RM++E++ I+VVQ +S A+ ++
Sbjct: 55 FSRHKKDNGADQIYVFFPKDAKPGVKTIRSYVERMKQESVFNGILVVQQALSAFARSAVQ 114
Query: 120 DMAPKYILEQFLESELLINITEHELVPEHIVLTPDEKQELLAR 162
+++ K+ LE F E+ELL+NI +H LVPEH +LTP++K+ LL R
Sbjct: 115 EVSQKFHLEVFQEAELLVNIKDHTLVPEHELLTPEQKKTLLER 157
>01_06_1059 -
34156139-34156238,34157113-34157189,34158146-34158259,
34158390-34158569,34159312-34159524
Length = 227
Score = 139 bits (336), Expect = 1e-33
Identities = 71/154 (46%), Positives = 101/154 (65%), Gaps = 5/154 (3%)
Query: 9 KLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHNDDP 68
+L RIR+TVMQ+ DRGYLV + EL F ++G+ R DL++ +DP
Sbjct: 14 RLVRIRRTVMQMLRDRGYLVVEHELAMGRRDFLRKYGESFH-----REDLLINKYKKNDP 68
Query: 69 TDQMFVFFPDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMAPKYILE 128
+DQ++VFFP++ K+G+K IK Y M+ EN+ RA++V+Q ++P A+ L ++ PK LE
Sbjct: 69 SDQIYVFFPNDDKVGMKHIKKYVEMMKAENVSRAVLVLQQNLTPFARSFLQELEPKIHLE 128
Query: 129 QFLESELLINITEHELVPEHIVLTPDEKQELLAR 162
F E+ELLINI EH LVPEH VL +EK+ LL R
Sbjct: 129 IFQEAELLINIKEHVLVPEHQVLNNEEKKTLLER 162
>12_01_0261 -
1917149-1917274,1917809-1917922,1918155-1918331,
1919075-1919341
Length = 227
Score = 92.3 bits (219), Expect = 2e-19
Identities = 48/155 (30%), Positives = 97/155 (62%), Gaps = 6/155 (3%)
Query: 6 ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65
E+++L+ R+T M++ DRGY V + E+ +TL +F+ + +KP +R A + +V
Sbjct: 29 ESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLAFTTTLV----- 83
Query: 66 DDPTDQMFVFFPDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMAPKY 125
DP+ ++ + F + I TI+ + +EEN+ R ++++Q+ + A++++ ++ K+
Sbjct: 84 SDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIKEIF-KF 142
Query: 126 ILEQFLESELLINITEHELVPEHIVLTPDEKQELL 160
++ F ++LL+NIT+H L P+H VL+ D+K +LL
Sbjct: 143 KVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLL 177
>11_01_0263 -
1998399-1998524,1999055-1999168,1999400-1999576,
2000321-2000587
Length = 227
Score = 92.3 bits (219), Expect = 2e-19
Identities = 48/155 (30%), Positives = 97/155 (62%), Gaps = 6/155 (3%)
Query: 6 ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65
E+++L+ R+T M++ DRGY V + E+ +TL +F+ + +KP +R A + +V
Sbjct: 29 ESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLAFTTTLV----- 83
Query: 66 DDPTDQMFVFFPDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMAPKY 125
DP+ ++ + F + I TI+ + +EEN+ R ++++Q+ + A++++ ++ K+
Sbjct: 84 SDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIKEIF-KF 142
Query: 126 ILEQFLESELLINITEHELVPEHIVLTPDEKQELL 160
++ F ++LL+NIT+H L P+H VL+ D+K +LL
Sbjct: 143 KVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLL 177
>10_02_0192 +
6517985-6518348,6518647-6518699,6519984-6520021,
6522332-6522717,6523752-6523822,6524620-6524732,
6525019-6525337,6525576-6525886,6526493-6527069,
6530483-6530538,6531643-6532126
Length = 923
Score = 28.7 bits (61), Expect = 2.4
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 107 QAGMSPSAKQSLVDMAPKYILEQFLESELLIN---ITEHELVPEHIVLTPDEKQE 158
+A + PSA ++ D+ + ++ F +L++N IT ++ E + PDE QE
Sbjct: 677 RAYLLPSASSAIQDVNENHRMKDFNAHQLMVNDESITIDQIASEVAEIYPDEPQE 731
>11_06_0060 -
19695338-19695477,19695641-19695734,19695818-19695973,
19696109-19696168,19696384-19696602,19696607-19697036,
19698428-19698747
Length = 472
Score = 27.5 bits (58), Expect = 5.5
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 73 FVFFPDEAKIGIKTIKTYCTRMQEENIHRAI 103
F P + GI +K++C+R + +HR++
Sbjct: 440 FAIEPSSLEDGIDRLKSFCSRHSKPKVHRSL 470
>03_02_0488 - 8824980-8825267,8825364-8827775
Length = 899
Score = 27.5 bits (58), Expect = 5.5
Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 63 AHNDDPTDQMFVFFPDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQS 117
A N + DQ+ E ++ + K+ C + ++ ++HR V+V + PS+++S
Sbjct: 615 AGNKNKKDQLVYNIVGEMRVSHR--KSRCYQAEKNHLHREFVLVGSEQLPSSEES 667
>02_05_0840 -
32118332-32118376,32118420-32118531,32119074-32119196,
32119267-32119379,32119460-32119605,32120048-32120162,
32120360-32120473
Length = 255
Score = 27.1 bits (57), Expect = 7.3
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 15 KTVMQLCHDRGYLVTQDELDQTL 37
KT+ Q+C + Y+V +DE+ QT+
Sbjct: 34 KTLEQICRECFYVVFEDEIHQTI 56
>10_08_0813 +
20774622-20774931,20775461-20775828,20776547-20776783,
20777717-20777968
Length = 388
Score = 26.6 bits (56), Expect = 9.6
Identities = 17/71 (23%), Positives = 32/71 (45%), Gaps = 2/71 (2%)
Query: 8 YKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHNDD 67
+ +WR+ K ++Q+ G + + + E +F + + +RP S +V H
Sbjct: 216 HNVWRV-KGIIQITRSIGDVYLKKP-EFNREPLHSKFRLQETFRRPLLSSEPAIVVHQLQ 273
Query: 68 PTDQMFVFFPD 78
TDQ +F D
Sbjct: 274 TTDQFIIFASD 284
Database: rice
Posted date: Oct 3, 2007 3:31 PM
Number of letters in database: 14,793,348
Number of sequences in database: 37,544
Lambda K H
0.319 0.135 0.386
Gapped
Lambda K H
0.279 0.0580 0.190
Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 4,674,622
Number of Sequences: 37544
Number of extensions: 177607
Number of successful extensions: 406
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 9
length of query: 162
length of database: 14,793,348
effective HSP length: 77
effective length of query: 85
effective length of database: 11,902,460
effective search space: 1011709100
effective search space used: 1011709100
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
S2: 56 (26.6 bits)
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