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Planaria EST Database

Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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= DrC_00998
         (1112 letters)

Database: Non-redundant SwissProt sequences 
           184,735 sequences; 68,354,980 total letters



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

sp|P41824|YBOXH_APLCA  Y-box factor homolog (APY1)                 74   6e-13
sp|P45441|YBX2B_XENLA  Y-box binding protein 2-B (Cytoplasmi...    71   5e-12
sp|P21574|YBX2A_XENLA  Y-box binding protein 2-A (Cytoplasmi...    71   6e-12
sp|P21573|YBOX1_XENLA  Nuclease sensitive element binding pr...    70   8e-12
sp|P62960|YBOX1_MOUSE  Nuclease sensitive element binding pr...    70   8e-12
sp|P67809|YBOX1_HUMAN  Nuclease sensitive element binding pr...    70   8e-12
sp|Q06066|YBOX1_CHICK  Nuclease sensitive element binding pr...    70   8e-12
sp|Q9JKB3|DBPA_MOUSE  DNA-binding protein A (Cold shock doma...    70   1e-11
sp|P16989|DBPA_HUMAN  DNA-binding protein A (Cold shock doma...    70   1e-11
sp|Q9Y2T7|YBOX2_HUMAN  Y-box binding protein 2 (Germ cell-sp...    70   1e-11

>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
          Length = 253

 Score = 74.3 bits (181), Expect = 6e-13
 Identities = 40/83 (48%), Positives = 51/83 (61%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           +QV+G VKWF+ K+GYGFI+ DD    +D+FVH                 DGE+V FD+V
Sbjct: 31  SQVSGTVKWFNVKSGYGFINRDD--TKEDVFVHQTAIVKNNPRKYLRSVGDGEKVEFDVV 88

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP G +V G K
Sbjct: 89  EGEKGNEAANVTGPEGSNVQGSK 111

>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
           (mRNP3)
          Length = 324

 Score = 71.2 bits (173), Expect = 5e-12
 Identities = 39/83 (46%), Positives = 49/83 (59%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           TQV G VKWF+ +NGYGFI+ +D  + +D+FVH                 DGE V FD+V
Sbjct: 40  TQVQGTVKWFNVRNGYGFINRND--SKEDVFVHQTAIKKNNPRKFLRSVGDGETVEFDVV 97

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP G  V G +
Sbjct: 98  EGEKGAEAANVTGPGGVPVKGSR 120

>sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmic RNA-binding protein p56)
           (mRNP4)
          Length = 336

 Score = 70.9 bits (172), Expect = 6e-12
 Identities = 39/83 (46%), Positives = 48/83 (57%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           TQV G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V
Sbjct: 40  TQVQGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKFLRSVGDGETVEFDVV 97

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP G  V G +
Sbjct: 98  EGEKGAEAANVTGPGGVPVKGSR 120

>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor)
          Length = 303

 Score = 70.5 bits (171), Expect = 8e-12
 Identities = 39/83 (46%), Positives = 48/83 (57%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           T+V G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V
Sbjct: 35  TKVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVV 92

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP G  V G K
Sbjct: 93  EGEKGAEAANVTGPEGVPVQGSK 115

>sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
 sp|P62961|YBOX1_RAT Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
          Length = 322

 Score = 70.5 bits (171), Expect = 8e-12
 Identities = 39/83 (46%), Positives = 48/83 (57%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           T+V G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V
Sbjct: 55  TKVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVV 112

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP G  V G K
Sbjct: 113 EGEKGAEAANVTGPGGVPVQGSK 135

>sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
 sp|P67808|YBOX1_BOVIN Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
          Length = 324

 Score = 70.5 bits (171), Expect = 8e-12
 Identities = 39/83 (46%), Positives = 48/83 (57%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           T+V G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V
Sbjct: 57  TKVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVV 114

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP G  V G K
Sbjct: 115 EGEKGAEAANVTGPGGVPVQGSK 137

>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor)
          Length = 321

 Score = 70.5 bits (171), Expect = 8e-12
 Identities = 39/83 (46%), Positives = 48/83 (57%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           T+V G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V
Sbjct: 54  TKVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVV 111

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP G  V G K
Sbjct: 112 EGEKGAEAANVTGPGGVPVQGSK 134

>sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock domain protein A) (Y-box protein
           3)
 sp|Q5PQD5|DBPA_XENLA DNA-binding protein A (Cold shock domain protein A)
          Length = 361

 Score = 69.7 bits (169), Expect = 1e-11
 Identities = 38/83 (45%), Positives = 49/83 (59%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           T+V G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V
Sbjct: 81  TKVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVV 138

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP+G  V G +
Sbjct: 139 EGEKGAEAANVTGPDGVPVEGSR 161

>sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock domain protein A) (Single-strand
           DNA binding protein NF-GMB)
          Length = 372

 Score = 69.7 bits (169), Expect = 1e-11
 Identities = 38/83 (45%), Positives = 49/83 (59%), Gaps = 4/83 (4%)
 Frame = +1

Query: 160 TQVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 327
           T+V G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V
Sbjct: 89  TKVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVV 146

Query: 328 QGAKGLEARNVTGPNGGDVIGGK 396
           +G KG EA NVTGP+G  V G +
Sbjct: 147 EGEKGAEAANVTGPDGVPVEGSR 169

>sp|Q9Y2T7|YBOX2_HUMAN Y-box binding protein 2 (Germ cell-specific Y-box binding protein)
           (Contrin) (MSY2 homolog)
          Length = 364

 Score = 69.7 bits (169), Expect = 1e-11
 Identities = 40/86 (46%), Positives = 49/86 (56%), Gaps = 4/86 (4%)
 Frame = +1

Query: 163 QVTGHVKWFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 330
           QV G VKWF+ +NGYGFI+ +D    +D+FVH                 DGE V FD+V+
Sbjct: 93  QVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKRNNPRKFLRSVGDGETVEFDVVE 150

Query: 331 GAKGLEARNVTGPNGGDVIGGKPYEP 408
           G KG EA NVTGP GG  + G  Y P
Sbjct: 151 GEKGAEATNVTGP-GGVPVKGSRYAP 175

  Database: Non-redundant SwissProt sequences
    Posted date:  Dec 6, 2005  7:40 AM
  Number of letters in database: 68,354,980
  Number of sequences in database:  184,735
  
  Database: swissprot.01
    Posted date:  Dec 6, 2005  8:18 AM
  Number of letters in database: 66,202,850
  Number of sequences in database:  184,431
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 86,479,687
Number of Sequences: 369166
Number of extensions: 1524876
Number of successful extensions: 4602
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3718
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): 4211
length of database: 68,354,980
effective HSP length: 112
effective length of database: 47,664,660
effective search space used: 12297482280
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Cluster detail

1. Dr_sW_027_O12
2. Dr_sW_001_K07
3. Dr_sW_009_H02
4. Dr_sW_021_B21
5. Dr_sW_025_D15
6. Dr_sW_022_I12
7. Dr_sW_024_H14
8. Dr_sW_025_C21
9. Dr_sW_001_E01
10. Dr_sW_015_E05
11. Dr_sW_023_G21
12. Dr_sW_024_K11
13. Dr_sW_006_E24
14. Dr_sW_021_H17
15. Dr_sW_013_M06
16. Dr_sW_016_B24
17. Dr_sW_013_A15
18. Dr_sW_010_I06
19. Dr_sW_006_N24
20. Dr_sW_012_N02
21. Dr_sW_008_P13
22. Dr_sW_026_I21
23. Dr_sW_026_D03
24. Dr_sW_011_E23
25. Dr_sW_021_N10
26. Dr_sW_011_C15
27. Dr_sW_019_B03
28. Dr_sW_017_I19
29. Dr_sW_005_M05
30. Dr_sW_020_D23
31. Dr_sW_010_A17
32. Dr_sW_007_J05
33. Dr_sW_011_I15
34. Dr_sW_025_C08
35. Dr_sW_002_C12
36. Dr_sW_007_K03
37. Dr_sW_021_B22