Bombyx BLAST Result against arabidopsis

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= bmnc10h01
         (724 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At4g02840.1 68417.m00384 small nuclear ribonucleoprotein D1, put...   119   2e-27
At3g07590.1 68416.m00909 small nuclear ribonucleoprotein D1, put...   116   2e-26
At1g20580.1 68414.m02569 small nuclear ribonucleoprotein, putati...    42   4e-04
At5g27720.1 68418.m03325 small nuclear ribonucleoprotein, putati...    40   0.001
At1g76300.1 68414.m08862 small nuclear ribonucleoprotein D3, put...    38   0.007
At1g03330.1 68414.m00312 small nuclear ribonucleoprotein D, puta...    37   0.012
At3g59810.1 68416.m06674 small nuclear ribonucleoprotein F, puta...    32   0.33 
At2g43810.1 68415.m05446 small nuclear ribonucleoprotein F, puta...    29   3.1  
At1g51800.1 68414.m05837 leucine-rich repeat protein kinase, put...    29   3.1  
At3g11964.1 68416.m01479 S1 RNA-binding domain-containing protei...    28   5.5  
At1g22000.1 68414.m02752 F-box family protein contains F-box dom...    27   9.5  

>At4g02840.1 68417.m00384 small nuclear ribonucleoprotein D1,
           putative / snRNP core protein D1, putative / Sm protein
           D1, putative similar to small nuclear ribonucleoprotein
           Sm D1 (snRNP core protein D1, Sm-D1, Sm-D autoantigen)
           [Mouse] SWISS-PROT:P13641
          Length = 116

 Score =  119 bits (287), Expect = 2e-27
 Identities = 55/86 (63%), Positives = 69/86 (80%)
 Frame = +3

Query: 102 MKLVRFLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSI 281
           MKLVRFLMKL++ETV+IELKNG++VHGTITGVDV+MNTHLKAVK+TLK +  + L+ LS+
Sbjct: 1   MKLVRFLMKLNNETVSIELKNGTIVHGTITGVDVSMNTHLKAVKLTLKGKNPVTLDHLSV 60

Query: 282 RGNNIRYYXXXXXXXXXXXXIDDTPK 359
           RGNNIRYY            ++DTP+
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEDTPR 86


>At3g07590.1 68416.m00909 small nuclear ribonucleoprotein D1,
           putative / snRNP core protein D1, putative / Sm protein
           D1, putative similar to SWISS-PROT:SP|P13641 small
           nuclear ribonucleoprotein Sm D1 (snRNP core protein D1,
           Sm-D1, Sm-D autoantigen)[Mouse]
          Length = 114

 Score =  116 bits (279), Expect = 2e-26
 Identities = 54/86 (62%), Positives = 68/86 (79%)
 Frame = +3

Query: 102 MKLVRFLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSI 281
           MKLVRFLMKL++ETV+IELKNG+VVHGTITGVDV+MNTHLK VK++LK +  + L+ LS+
Sbjct: 1   MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDVSMNTHLKTVKMSLKGKNPVTLDHLSL 60

Query: 282 RGNNIRYYXXXXXXXXXXXXIDDTPK 359
           RGNNIRYY            ++DTP+
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEDTPR 86


>At1g20580.1 68414.m02569 small nuclear ribonucleoprotein, putative
           / snRNP, putative / Sm protein, putative similar to
           small nuclear ribonucleoprotein Sm D3 (snRNP core
           protein D3, Sm-D3) [Mus musculus] SWISS-PROT:P43331
          Length = 131

 Score = 41.9 bits (94), Expect = 4e-04
 Identities = 21/64 (32%), Positives = 37/64 (57%)
 Frame = +3

Query: 111 VRFLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGN 290
           V+ L + S   VT+ELK+G +  G++   +   N  L+ +  T K+ +  QLE + IRG+
Sbjct: 9   VKLLHEASGHIVTVELKSGELYRGSMIECEDNWNCQLEDITYTAKDGKVSQLEHVFIRGS 68

Query: 291 NIRY 302
            +R+
Sbjct: 69  KVRF 72


>At5g27720.1 68418.m03325 small nuclear ribonucleoprotein, putative
           / snRNP, putative / Sm protein, putative similar to
           SWISS-PROT:Q9QXA5 U6 snRNA-associated Sm-like protein
           LSm4 [Mus musculus]
          Length = 129

 Score = 40.3 bits (90), Expect = 0.001
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
 Frame = +3

Query: 150 IELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREEL-QLETLSIRGNNIRY 302
           +ELKNG   +G +   D  MN HL+ V  T K+ +   ++    IRGN I+Y
Sbjct: 17  VELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKY 68


>At1g76300.1 68414.m08862 small nuclear ribonucleoprotein D3,
           putative / snRNP core protein D3, putative / Sm protein
           D3, putative similar to SWISS-PROT:P43331 small nuclear
           ribonucleoprotein Sm D3 (snRNP core protein D3, Sm-D3)
           [Mouse]
          Length = 128

 Score = 37.9 bits (84), Expect = 0.007
 Identities = 19/64 (29%), Positives = 37/64 (57%)
 Frame = +3

Query: 111 VRFLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGN 290
           V+ L + S   V++E+K+G +  G++   +   N  L+ +  T K+ +  QLE + IRG+
Sbjct: 9   VKLLHESSGHIVSVEMKSGELYRGSMIECEDNWNCQLENITYTAKDGKVSQLEHVFIRGS 68

Query: 291 NIRY 302
            +R+
Sbjct: 69  LVRF 72


>At1g03330.1 68414.m00312 small nuclear ribonucleoprotein D,
           putative / snRNP core SM-like protein, putative / U6
           snRNA-associated Sm-like protein, putative similar to
           SWISS-PROT:Q9Y333 U6 snRNA-associated Sm-like protein
           LSm2 (Small nuclear ribonuclear protein D homolog, G7b,
           SnRNP core SM-like protein SM-x5) [Homo sapiens]
          Length = 93

 Score = 37.1 bits (82), Expect = 0.012
 Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
 Frame = +3

Query: 102 MKLVRFLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNR--EELQLETL 275
           M    +   L  + VT+ELKN   + GT+  VD  +N  L+  +V  +++    L +   
Sbjct: 1   MLFFSYFKDLVGQEVTVELKNDLAIRGTLHSVDQYLNIKLENTRVVDQDKYPHMLSVRNC 60

Query: 276 SIRGNNIRY 302
            IRG+ +RY
Sbjct: 61  FIRGSVVRY 69


>At3g59810.1 68416.m06674 small nuclear ribonucleoprotein F,
           putative / U6 snRNA-associated Sm-like protein, putative
           / Sm protein F, putative similar to SWISS-PROT:Q9Y4Y8 U6
           snRNA-associated Sm-like protein LSm6 [Mus musculus]
          Length = 91

 Score = 32.3 bits (70), Expect = 0.33
 Identities = 17/62 (27%), Positives = 31/62 (50%)
 Frame = +3

Query: 117 FLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGNNI 296
           FL  +    V ++L +G    GT+T +D  MN  ++  +  +  + + +     IRGNN+
Sbjct: 18  FLKSIRGRPVVVKLNSGVDYRGTLTCLDGYMNIAMEQTEEYVNGQLKNKYGDAFIRGNNV 77

Query: 297 RY 302
            Y
Sbjct: 78  LY 79


>At2g43810.1 68415.m05446 small nuclear ribonucleoprotein F,
           putative / U6 snRNA-associated Sm-like protein, putative
           / Sm protein F, putative similar to SWISS-PROT:Q9Y4Y8 U6
           snRNA-associated Sm-like protein LSm6 [Mus musculus]
          Length = 91

 Score = 29.1 bits (62), Expect = 3.1
 Identities = 15/62 (24%), Positives = 30/62 (48%)
 Frame = +3

Query: 117 FLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGNNI 296
           FL  +  + V ++L +G    G +T +D  MN  ++  +  +  + +       +RGNN+
Sbjct: 18  FLKSIRGKPVVVKLNSGVDYRGILTCLDGYMNIAMEQTEEYVNGQLKNTYGDAFVRGNNV 77

Query: 297 RY 302
            Y
Sbjct: 78  LY 79


>At1g51800.1 68414.m05837 leucine-rich repeat protein kinase,
           putative similar to light repressible receptor protein
           kinase [Arabidopsis thaliana] gi|1321686|emb|CAA66376;
           contains leucine rich repeat (LRR) domains,
           Pfam:PF00560; contains protein kinase domain,
           Pfam:PF00069
          Length = 894

 Score = 29.1 bits (62), Expect = 3.1
 Identities = 17/51 (33%), Positives = 26/51 (50%)
 Frame = -1

Query: 232 FTAFKCVFIATSTPVIVP*TTLPFFNSIVTVSWLSFIKNLTSFILLDLLTN 80
           ++   C ++   TP I+   +L    S +T   L FI +LTS  +LDL  N
Sbjct: 395 WSGVNCTYVDNETPKII---SLDLSTSGLTGEILEFISDLTSLEVLDLSNN 442


>At3g11964.1 68416.m01479 S1 RNA-binding domain-containing protein
           similar to SP|Q05022 rRNA biogenesis protein RRP5
           {Saccharomyces cerevisiae}; contains Pfam profile
           PF00575: S1 RNA binding domain
          Length = 1838

 Score = 28.3 bits (60), Expect = 5.5
 Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
 Frame = +3

Query: 129 LSHETVTIELKNGSVVHGTITGVDVA-MNTHLKAVKVTLKNREEL-QLETLSIRGNNI 296
           ++ + V + +K+ SVV GTI+   +A  +   K +   L+   EL +L  L I GNN+
Sbjct: 587 ITSQAVIVRVKSKSVVKGTISAEHLADHHEQAKLIMSLLRPGYELDKLLVLDIEGNNM 644


>At1g22000.1 68414.m02752 F-box family protein contains F-box domain
           Pfam:PF00646
          Length = 727

 Score = 27.5 bits (58), Expect = 9.5
 Identities = 12/32 (37%), Positives = 19/32 (59%)
 Frame = +2

Query: 536 CD*IKFSWCFLFYKVTVFMLNTIIKLQ*LLAN 631
           C+ IKFSW   FY   + +++ ++ L  LL N
Sbjct: 323 CNAIKFSWLIEFYFFPISLVDWLMPLMFLLQN 354


  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: 12,472,447
Number of Sequences: 28952
Number of extensions: 204299
Number of successful extensions: 407
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 399
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): 407
length of database: 12,070,560
effective HSP length: 79
effective length of database: 9,783,352
effective search space used: 1575119672
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)