GeneModel BLAST Result against rice

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= BGIBMGA001392-TA|BGIBMGA001392-PA|IPR008946|Nuclear receptor,
ligand-binding, IPR000536|Nuclear hormone receptor, ligand-binding
         (177 letters)

Database: rice 
           37,544 sequences; 14,793,348 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

01_06_1361 - 36663859-36663985,36664353-36664543,36664746-366650...    30   1.2  
06_01_0245 - 1849156-1849197,1849300-1849341,1849564-1849605,184...    29   1.6  
02_04_0133 + 20101553-20103070                                         29   2.1  
01_06_0765 - 31808775-31809443,31809547-31809703,31809777-318098...    28   4.9  
06_03_1490 + 30497980-30498102,30499034-30500156,30500914-305011...    27   6.5  
06_01_0893 - 6834350-6834464,6835042-6835218,6835301-6835350,683...    27   6.5  
02_04_0614 - 24400284-24400568,24400669-24400932,24401040-244011...    27   6.5  
03_02_0913 + 12344096-12344125,12344284-12345970,12346243-123465...    27   8.6  

>01_06_1361 -
           36663859-36663985,36664353-36664543,36664746-36665009,
           36665215-36665373,36665476-36665679,36665765-36665983,
           36666191-36666322,36666406-36666523,36666670-36666854,
           36667263-36667355,36667819-36668008,36668500-36668585,
           36668671-36668847,36669141-36669320,36669423-36669623
          Length = 841

 Score = 29.9 bits (64), Expect = 1.2
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 44  EEYCRTQYPNQPTRFGKLLLRLPSLRTVSSQVIEQLFFRYQREAQPEDAVTSSSEF 99
           ++ C   YP   T  GK LLRL     + S  ++ +FFR+ +E + +      SEF
Sbjct: 277 QQICAVLYPGDATEEGK-LLRLKQQYFLCSASLQDIFFRF-KERKADRVSGKWSEF 330


>06_01_0245 -
           1849156-1849197,1849300-1849341,1849564-1849605,
           1849697-1849824,1850078-1850285,1850381-1850561,
           1851761-1852114,1852577-1852803
          Length = 407

 Score = 29.5 bits (63), Expect = 1.6
 Identities = 13/29 (44%), Positives = 16/29 (55%)

Query: 107 YFARGRSSERADPCPTFDPLSAFYAPKTT 135
           YF+ G   + A P PT D L   Y P+TT
Sbjct: 36  YFSSGGRDDDAGPFPTSDELYHHYRPRTT 64


>02_04_0133 + 20101553-20103070
          Length = 505

 Score = 29.1 bits (62), Expect = 2.1
 Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 1/77 (1%)

Query: 62  LLRLPSLRTVSSQVIEQLFFRYQREAQPED-AVTSSSEFQEAAETDYFARGRSSERADPC 120
           +L LPS   V +  + +L   +   A P   A  S+     AA      R  ++   DPC
Sbjct: 120 MLPLPSTDLVPNLTLRRLIALWASTAAPSSPAAPSAVGPTPAAAAAELLRRVAAPGVDPC 179

Query: 121 PTFDPLSAFYAPKTTEE 137
           P    L+AF +    +E
Sbjct: 180 PALRKLAAFLSDDDVDE 196


>01_06_0765 -
           31808775-31809443,31809547-31809703,31809777-31809894,
           31810170-31810308
          Length = 360

 Score = 27.9 bits (59), Expect = 4.9
 Identities = 32/148 (21%), Positives = 60/148 (40%), Gaps = 5/148 (3%)

Query: 23  ACGLSDVTHIESLQEKSQCALEEYCRTQYP-NQPTRFGKLLLRLPSLRTVSSQVIEQLFF 81
           AC  ++  H  ++ ++S   L +    + P ++  R G    R+  L T   +V ++L  
Sbjct: 106 ACSDANGAHHRTVVDRSSPKLADRHSPRSPLHEKKRAGT---RVAELETKLGKVQDELKK 162

Query: 82  RYQREAQPEDAVTSSSEFQEAAETDYFARGRSSERADPCPTFDPLSAFYAPKTTEECFEV 141
             ++ A  E A   +    E A+     +G  +  A   P      A   PK TE+  +V
Sbjct: 163 LREQLATAEAAKKDAQVALEEAKKRVGTKGSPASAAAASPRSPSPVAVETPKKTEQQLKV 222

Query: 142 ATSTIETQKQVHKSLT-IDNLLNTRSQD 168
                E +  ++   T +  ++ T S D
Sbjct: 223 TEPPAEEESSINSPATDVFEVVRTESGD 250


>06_03_1490 + 30497980-30498102,30499034-30500156,30500914-30501132,
            30501228-30501454,30501810-30501884,30502250-30502321,
            30502765-30502863,30502975-30503046,30503131-30503245,
            30503455-30503523,30503625-30503952,30504320-30504437,
            30504522-30505448
          Length = 1188

 Score = 27.5 bits (58), Expect = 6.5
 Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 64   RLPSLRTVSSQVIEQLFFRYQ--REAQPEDAVTSSSEFQEAAETDYFARGRSSERADPCP 121
            R  S R+ + Q     F RY     +   D   + + F     TDY +RG S +  DP  
Sbjct: 1106 RFDSFRSNADQGGGNSFTRYDSMNSSSDHDRTDAFARFDSMKSTDYNSRGYSFDEDDPFG 1165

Query: 122  T 122
            T
Sbjct: 1166 T 1166


>06_01_0893 -
           6834350-6834464,6835042-6835218,6835301-6835350,
           6836348-6836416,6836495-6836593,6836681-6836759,
           6837604-6837704,6838645-6838713,6839548-6839588,
           6839793-6841159,6841472-6841575,6841914-6842351,
           6843040-6843567
          Length = 1078

 Score = 27.5 bits (58), Expect = 6.5
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 141 VATSTIETQKQVHKSLTIDNLLNTRSQDSCS 171
           ++TST E    +H+S   D+ ++T+S+D  S
Sbjct: 460 ISTSTSENLPVIHESRNTDHTMSTQSKDKSS 490


>02_04_0614 -
           24400284-24400568,24400669-24400932,24401040-24401134,
           24401173-24401253,24401544-24402066
          Length = 415

 Score = 27.5 bits (58), Expect = 6.5
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 84  QREAQPEDAVTSSSEFQEAAETDYFARGRSSERADPCPTFD-PLSAFYAPKTTEECFE 140
           QRE + +D ++     QE  +  Y  R       +PC   D  L   Y P T E  ++
Sbjct: 36  QREIEEQDELSRLRHEQEREDDLYVCRMIEERHGEPCHLEDHELEKIYGPHTYETDYD 93


>03_02_0913 +
           12344096-12344125,12344284-12345970,12346243-12346573,
           12346712-12347567,12347760-12347883,12348469-12348688,
           12348771-12349229,12349318-12349519
          Length = 1302

 Score = 27.1 bits (57), Expect = 8.6
 Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 90  EDAVTSSSEFQEAAETDYFARGRSSERADPCPT-FDP-LSAFYAPKTTEECFEVATSTIE 147
           E  V SSS+ QE        R +SS+  DP  +  DP L     P  T + +E   + I 
Sbjct: 107 EIGVVSSSQPQEKPNRPQRVRNKSSQFEDPFSSEHDPRLIYINDPNRTNDRYEFTGNEIR 166

Query: 148 TQK 150
           T K
Sbjct: 167 TSK 169


  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
   0.315    0.127    0.361 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 4,498,539
Number of Sequences: 37544
Number of extensions: 160786
Number of successful extensions: 399
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 397
Number of HSP's gapped (non-prelim): 8
length of query: 177
length of database: 14,793,348
effective HSP length: 77
effective length of query: 100
effective length of database: 11,902,460
effective search space: 1190246000
effective search space used: 1190246000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.6 bits)
S2: 57 (27.1 bits)