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Last updated: 2022/11/18
BLASTX 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= msgV0903.Seq
         (499 letters)

Database: arabidopsis 
           28,952 sequences; 12,070,560 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At2g29190.1 68415.m03548 pumilio/Puf RNA-binding domain-containi...    38   0.005
At2g29200.1 68415.m03549 pumilio/Puf RNA-binding domain-containi...    37   0.007
At2g29140.1 68415.m03542 pumilio/Puf RNA-binding domain-containi...    37   0.007
At3g16810.1 68416.m02147 pumilio/Puf RNA-binding domain-containi...    36   0.020
At3g20250.1 68416.m02565 pumilio/Puf RNA-binding domain-containi...    32   0.19 
At3g10360.1 68416.m01242 pumilio/Puf RNA-binding domain-containi...    32   0.19 
At5g43110.1 68418.m05263 pumilio/Puf RNA-binding domain-containi...    29   1.3  
At3g12850.1 68416.m01602 COP9 signalosome complex-related / CSN ...    29   2.3  
At4g08560.1 68417.m01408 pumilio/Puf RNA-binding domain-containi...    28   3.0  
At1g22400.1 68414.m02801 UDP-glucoronosyl/UDP-glucosyl transfera...    28   4.0  
At1g78160.1 68414.m09108 pumilio/Puf RNA-binding domain-containi...    27   7.0  
At5g17180.1 68418.m02013 hypothetical protein                          27   9.3  
At1g50730.1 68414.m05705 expressed protein                             27   9.3  

>At2g29190.1 68415.m03548 pumilio/Puf RNA-binding domain-containing
           protein 
          Length = 972

 Score = 37.5 bits (83), Expect = 0.005
 Identities = 20/45 (44%), Positives = 27/45 (60%)
 Frame = +1

Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
           VIQ +L+H   D    I KEL   IVQM Q K+A + V++ L +G
Sbjct: 832 VIQHVLEHGKPDERTVIIKELAGKIVQMSQQKFASNVVEKCLTFG 876


>At2g29200.1 68415.m03549 pumilio/Puf RNA-binding domain-containing
           protein similar to BPM [Hordeum vulgare] GI:20513851
          Length = 968

 Score = 37.1 bits (82), Expect = 0.007
 Identities = 19/45 (42%), Positives = 27/45 (60%)
 Frame = +1

Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
           V+Q +L+H   D    I KEL   IVQM Q K+A + V++ L +G
Sbjct: 828 VVQHVLEHGKPDERTVIIKELAGKIVQMSQQKFASNVVEKCLTFG 872



 Score = 28.7 bits (61), Expect = 2.3
 Identities = 9/19 (47%), Positives = 14/19 (73%)
 Frame = +3

Query: 261 VLKKFYGHIVSLSTHAIKC 317
           ++  F+GH+V+LSTH   C
Sbjct: 771 IISTFFGHVVTLSTHPYGC 789


>At2g29140.1 68415.m03542 pumilio/Puf RNA-binding domain-containing
           protein 
          Length = 964

 Score = 37.1 bits (82), Expect = 0.007
 Identities = 19/45 (42%), Positives = 27/45 (60%)
 Frame = +1

Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
           V+Q +L+H   D    I KEL   IVQM Q K+A + V++ L +G
Sbjct: 824 VVQHVLEHGKPDERTVIIKELAGKIVQMSQQKFASNVVEKCLTFG 868



 Score = 28.7 bits (61), Expect = 2.3
 Identities = 9/19 (47%), Positives = 14/19 (73%)
 Frame = +3

Query: 261 VLKKFYGHIVSLSTHAIKC 317
           ++  F+GH+V+LSTH   C
Sbjct: 767 IISTFFGHVVTLSTHPYGC 785


>At3g16810.1 68416.m02147 pumilio/Puf RNA-binding domain-containing
           protein contains Pfam profile:PF00806 Pumilio-family RNA
           binding domains
          Length = 641

 Score = 35.5 bits (78), Expect = 0.020
 Identities = 21/77 (27%), Positives = 39/77 (50%)
 Frame = +1

Query: 1   RKVVKSDFKINSCKELHNMLKGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDII 180
           R + K D +     E    +KG+   IA++H  SRV+Q  +K   +   + +  EL    
Sbjct: 101 RNIGKED-RSKLISEAIRKMKGKVPEIAVSHVSSRVLQTCVKFCSQAEKDVLFTELQPQF 159

Query: 181 VQMGQSKYAHHSVKRIL 231
           + +  +KYA H ++++L
Sbjct: 160 LNLASNKYAVHFIQKML 176


>At3g20250.1 68416.m02565 pumilio/Puf RNA-binding domain-containing
           protein contains Pfam profile: PF00806 Pumilio-family
           RNA binding domains (aka PUM-HD, Pumilio homology
           domain) (8 copies at C-terminus)
          Length = 961

 Score = 32.3 bits (70), Expect = 0.19
 Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
 Frame = +1

Query: 76  SIALTHDL--SRVIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKY 237
           + AL HD   + V Q +L+    D   +I ++L   +VQM Q KYA + V++ L++
Sbjct: 814 AFALAHDQYGNYVTQHVLERGKPDERRQIIEKLTGNVVQMSQHKYASNVVEKCLEH 869


>At3g10360.1 68416.m01242 pumilio/Puf RNA-binding domain-containing
           protein similar to RNA binding protein PufA GB:AAD39751
           [Dictyostelium discoideum] and similar to Pumilio
           protein GB:A46221 [Drosophila sp.]
          Length = 1003

 Score = 32.3 bits (70), Expect = 0.19
 Identities = 16/45 (35%), Positives = 27/45 (60%)
 Frame = +1

Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
           VIQ +++H      +EI  +L   IV+M Q K+A + V++ L +G
Sbjct: 862 VIQHIIQHGKPHERSEIINKLAGQIVKMSQQKFASNVVEKCLTFG 906


>At5g43110.1 68418.m05263 pumilio/Puf RNA-binding domain-containing
           protein contains similarity to RNA-binding protein
          Length = 518

 Score = 29.5 bits (63), Expect = 1.3
 Identities = 10/43 (23%), Positives = 28/43 (65%)
 Frame = +1

Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILK 234
           V+Q +++ +   +I+ + ++L+     + ++KY  H+V+++LK
Sbjct: 405 VVQYIVELNNRYLIDALVRQLIGNYAHLARNKYGSHAVQKLLK 447


>At3g12850.1 68416.m01602 COP9 signalosome complex-related / CSN
           complex-related low similarity to SP|P45432 COP9
           signalosome complex subunit 1 (CSN complex subunit 1)
           (COP11 protein) (FUSCA protein FUS6) {Arabidopsis
           thaliana}
          Length = 367

 Score = 28.7 bits (61), Expect = 2.3
 Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
 Frame = +1

Query: 22  FKINSCKELHNMLKGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDIIVQMGQSK 201
           FKI+  K L N+L+ +Y+  A  + +  ++      +P   I ++   L ++I   G   
Sbjct: 187 FKIDCFKSLSNLLESKYQVTAEGNAVDTIV------NP---IGQVASHLENVIKPFGPCD 237

Query: 202 YAHHSVKRILK-YGTDCISM 258
           Y    +K++L  + TDC+++
Sbjct: 238 YLIDVIKKLLAGHFTDCMTL 257


>At4g08560.1 68417.m01408 pumilio/Puf RNA-binding domain-containing
           protein low similarity to RNA binding protein PufA
           [Dictyostelium discoideum] GI:5106561; contains Pfam
           profile PF00806: Pumilio-family RNA binding repeat
          Length = 477

 Score = 28.3 bits (60), Expect = 3.0
 Identities = 13/43 (30%), Positives = 24/43 (55%)
 Frame = +1

Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILK 234
           V+Q LL+    ++ + ++K L    VQ+   KY  H V++ L+
Sbjct: 361 VVQYLLRLKDYEVTSALSKHLDGNYVQLSYDKYGSHVVQKCLE 403


>At1g22400.1 68414.m02801 UDP-glucoronosyl/UDP-glucosyl transferase
           family protein contains Pfam profile: PF00201
           UDP-glucoronosyl and UDP-glucosyl transferase
          Length = 489

 Score = 27.9 bits (59), Expect = 4.0
 Identities = 14/36 (38%), Positives = 19/36 (52%)
 Frame = -2

Query: 294 GIQYVHKTSSKPHANAICSIFQYSLNGMMRILRLTH 187
           G Q +H  S KPH   +    Q  +N MMR+ +L H
Sbjct: 2   GSQIIHN-SQKPHVVCVPYPAQGHINPMMRVAKLLH 36


>At1g78160.1 68414.m09108 pumilio/Puf RNA-binding domain-containing
           protein contains Pfam profile: PF00806 Pumilio-family
           RNA binding domains (aka PUM-HD, Pumilio homology
           domain) (8 copies at C-terminal half of protein)
          Length = 650

 Score = 27.1 bits (57), Expect = 7.0
 Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
 Frame = +1

Query: 58  LKGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDI--IVQMGQSKYAHHSVKRIL 231
           LKG Y  +++    S +++  L H PE    +I +EL+ +    Q+ Q  YA+  ++  L
Sbjct: 554 LKGHYVQLSMQKFSSHMVERCLMHCPES-RPQIVRELVSVPHFDQLLQDPYANFVIQAAL 612


>At5g17180.1 68418.m02013 hypothetical protein 
          Length = 123

 Score = 26.6 bits (56), Expect = 9.3
 Identities = 10/17 (58%), Positives = 13/17 (76%)
 Frame = +1

Query: 115 VLLKHSPEDIINEITKE 165
           V LKH P+D+IN + KE
Sbjct: 77  VSLKHKPKDVINVVQKE 93


>At1g50730.1 68414.m05705 expressed protein
          Length = 1013

 Score = 26.6 bits (56), Expect = 9.3
 Identities = 10/40 (25%), Positives = 25/40 (62%)
 Frame = +1

Query: 61  KGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDII 180
           + +++S   +  +S ++  LLK  P ++++ +  E+LD+I
Sbjct: 404 RNKFQSSYNSSHVSILLHYLLKELPSELVSSLAMEILDMI 443


  Database: arabidopsis
    Posted date:  Oct 4, 2007 10:56 AM
  Number of letters in database: 12,070,560
  Number of sequences in database:  28,952
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 9,820,700
Number of Sequences: 28952
Number of extensions: 179964
Number of successful extensions: 489
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 471
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): 489
length of database: 12,070,560
effective HSP length: 76
effective length of database: 9,870,208
effective search space used: 878448512
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)

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