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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U00819-1
Contig ID Contig-U00819-1
Contig update 2001. 8.29
Contig sequence 
>Contig-U00819-1 (Contig-U00819-1Q) /CSM_Contig/Contig-U00819-1Q.Seq.d
AGATTAACAANATNAACNAGNTNAACAANNTNNACNAGNTNAACAAAATN
AACNAGNTCAACAAAATNNACNAGNTNNACAAAATNNACNAGNTCNACAA
AATNNACNAGNTCNACAAAATNNACNAGNNCAACAAAATCCCCNAGNTCN
ACNAGNTCNACAAAACCNACNAGNTCNACAAAAAGNAAACNGAAAAAAAA
AACNGGAAAAAAAAAACAAAAAAAAACAGAAA
Gap no gap
Contig length 232
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 1
Link to clone list U00819
List of clone(s) 

est1=CFF802Z,1,233
Translated Amino Acid sequence 
RLTXXTXXTXXTXXTKXTXSTKXTXXTKXTXSTKXTXSTKXTXXTKSPXSTXSTKPTXST
KXKXKKKTGKKKQKKTE
Translated Amino Acid sequence (All Frames) 
Frame A:
RLTXXTXXTXXTXXTKXTXSTKXTXXTKXTXSTKXTXSTKXTXXTKSPXSTXSTKPTXST
KXKXKKKTGKKKQKKTE


Frame B:
d*qxxxxxqxxxxxqnxxxqqnxxxxqnxxxxqnxxxxqnxxxqqnpxxxxxxqnxxxxq
kxnxkkkxekknkkkqk


Frame C:
inxxnxxnxxxxxnkxnxxnkxxxxxkxxxxxkxxxxxkxxxxnkipxxxxxxktxxxxk
kxtekknxkkktkknr
own update 2004. 6.21
Homology vs CSM-cDNA 
Query= Contig-U00819-1 (Contig-U00819-1Q)
/CSM_Contig/Contig-U00819-1Q.Seq.d
         (232 letters)

Database: CSM
           8402 sequences; 8,075,542 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U00819-1 (Contig-U00819-1Q) /CSM_Contig/Conti...    82  4e-16
Contig-U16510-1 (Contig-U16510-1Q) /CSM_Contig/Conti...    64  1e-10
Contig-U16511-1 (Contig-U16511-1Q) /CSM_Contig/Conti...    60  2e-09
Contig-U12080-1 (Contig-U12080-1Q) /CSM_Contig/Conti...    52  4e-07
Contig-U15699-1 (Contig-U15699-1Q) /CSM_Contig/Conti...    42  4e-04

>Contig-U00819-1 (Contig-U00819-1Q) /CSM_Contig/Contig-U00819-1Q.Seq.d
          Length = 232

 Score = 81.8 bits (41), Expect = 4e-16
 Identities = 167/167 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   agattaacaanatnaacnagntnaacaanntnnacnagntnaacaaaatnaacnagntca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   agattaacaanatnaacnagntnaacaanntnnacnagntnaacaaaatnaacnagntca 60

                                                                       
Query: 61  acaaaatnnacnagntnnacaaaatnnacnagntcnacaaaatnnacnagntcnacaaaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  acaaaatnnacnagntnnacaaaatnnacnagntcnacaaaatnnacnagntcnacaaaa 120

                                                          
Query: 121 tnnacnagnncaacaaaatccccnagntcnacnagntcnacaaaacc 167
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tnnacnagnncaacaaaatccccnagntcnacnagntcnacaaaacc 167


>Contig-U16510-1 (Contig-U16510-1Q) /CSM_Contig/Contig-U16510-1Q.Seq.d
          Length = 4601

 Score = 63.9 bits (32), Expect = 1e-10
 Identities = 95/126 (75%)
 Strand = Plus / Plus

                                                                        
Query: 42   aacaaaatnaacnagntcaacaaaatnnacnagntnnacaaaatnnacnagntcnacaaa 101
            |||||||| ||| || ||||||||||  || || |  |||||||  || || || |||||
Sbjct: 2276 aacaaaatcaacaagctcaacaaaatcaacaagctcaacaaaatcaacaagctcaacaaa 2335

                                                                        
Query: 102  atnnacnagntcnacaaaatnnacnagnncaacaaaatccccnagntcnacnagntcnac 161
            ||  || || || |||||||  || ||  ||||||||||| | || || || || || ||
Sbjct: 2336 atcaacaagctcaacaaaatcaacaagctcaacaaaatccacaagctcaacaagctcaac 2395

                  
Query: 162  aaaacc 167
            ||||||
Sbjct: 2396 aaaacc 2401


>Contig-U16511-1 (Contig-U16511-1Q) /CSM_Contig/Contig-U16511-1Q.Seq.d
          Length = 5402

 Score = 60.0 bits (30), Expect = 2e-09
 Identities = 93/124 (75%)
 Strand = Plus / Plus

                                                                        
Query: 42   aacaaaatnaacnagntcaacaaaatnnacnagntnnacaaaatnnacnagntcnacaaa 101
            |||||||| ||| || ||||||||||  || || |  |||||||  || || || |||||
Sbjct: 4463 aacaaaatcaacaagctcaacaaaatcaacaagctcaacaaaatcaacaagctcaacaaa 4522

                                                                        
Query: 102  atnnacnagntcnacaaaatnnacnagnncaacaaaatccccnagntcnacnagntcnac 161
            ||  || || || |||||||  || ||  ||||||||||| | || || || || || ||
Sbjct: 4523 atcaacaagctcaacaaaatcaacaagctcaacaaaatccacaagctcaacaagctcaac 4582

                
Query: 162  aaaa 165
            ||||
Sbjct: 4583 aaaa 4586


  Database: CSM
    Posted date:  Jun 21, 2004 12:56 PM
  Number of letters in database: 8,075,542
  Number of sequences in database:  8402
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 44
Number of Sequences: 8402
Number of extensions: 44
Number of successful extensions: 7
Number of sequences better than 10.0: 5
length of query: 232
length of database: 8,075,542
effective HSP length: 15
effective length of query: 217
effective length of database: 7,949,512
effective search space: 1725044104
effective search space used: 1725044104
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2009. 4.19
Homology vs DNA 
Query= Contig-U00819-1 (Contig-U00819-1Q) /CSM_Contig/Contig-U00819-1Q.Seq.d
         (232 letters)

Database: ddbj_A
           102,105,510 sequences; 101,790,757,118 total letters

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

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(BJ372299) Dictyostelium discoideum cDNA clone:ddc12d02, 3' ...    82   1e-11  1
(BJ381041) Dictyostelium discoideum cDNA clone:ddc40l01, 3' ...    66   6e-07  1
(AC117070) Dictyostelium discoideum chromosome 2 map 2097701...    64   2e-06  1
(AU060287) Dictyostelium discoideum slug cDNA, clone SLA870.       64   2e-06  1
(AU033473) Dictyostelium discoideum slug cDNA, clone SLA870.       64   2e-06  1
(BJ400820) Dictyostelium discoideum cDNA clone:dds15a03, 3' ...    64   2e-06  1
(BJ389798) Dictyostelium discoideum cDNA clone:dds20j01, 5' ...    64   2e-06  1
(BJ381533) Dictyostelium discoideum cDNA clone:ddc41g22, 3' ...    64   2e-06  1
(BJ375993) Dictyostelium discoideum cDNA clone:ddc20d21, 3' ...    64   2e-06  1
(BJ375982) Dictyostelium discoideum cDNA clone:ddc20a20, 3' ...    64   2e-06  1
(BJ371905) Dictyostelium discoideum cDNA clone:ddc10b11, 3' ...    64   2e-06  1
(BJ363883) Dictyostelium discoideum cDNA clone:ddc28o24, 5' ...    64   2e-06  1
(BJ361695) Dictyostelium discoideum cDNA clone:ddc18i07, 5' ...    64   2e-06  1
(BJ360818) Dictyostelium discoideum cDNA clone:ddc8i03, 5' e...    64   2e-06  1
(BJ359067) Dictyostelium discoideum cDNA clone:ddc12l18, 5' ...    64   2e-06  1
(BJ327050) Dictyostelium discoideum cDNA clone:dda18o24, 5' ...    64   2e-06  1
(BJ374286) Dictyostelium discoideum cDNA clone:ddc7f05, 3' e...    58   1e-04  1
(BJ340023) Dictyostelium discoideum cDNA clone:dda11h07, 3' ...    56   6e-04  1
(BJ401821) Dictyostelium discoideum cDNA clone:dds19b17, 3' ...    54   0.002  2
(BJ363653) Dictyostelium discoideum cDNA clone:ddc27b20, 5' ...    54   0.002  1
(BJ406082) Dictyostelium discoideum cDNA clone:dds34h03, 3' ...    52   0.009  1
(BJ398107) Dictyostelium discoideum cDNA clone:dds11c04, 3' ...    52   0.009  1
(BJ375448) Dictyostelium discoideum cDNA clone:ddc18b22, 3' ...    52   0.009  1
(BJ388383) Dictyostelium discoideum cDNA clone:dds9d07, 5' e...    50   0.036  1
(BJ339740) Dictyostelium discoideum cDNA clone:dda10p05, 3' ...    38   0.11   2
(BJ374341) Dictyostelium discoideum cDNA clone:ddc7g12, 3' e...    46   0.56   1
(BJ371976) Dictyostelium discoideum cDNA clone:ddc10m14, 3' ...    46   0.56   1
(BJ347204) Dictyostelium discoideum cDNA clone:dda26l12, 3' ...    46   0.56   1
(BJ374714) Dictyostelium discoideum cDNA clone:ddc16b05, 3' ...    44   2.2    1
(BJ347120) Dictyostelium discoideum cDNA clone:dda26m02, 3' ...    44   2.2    1
(BJ399939) Dictyostelium discoideum cDNA clone:dds8j03, 3' e...    42   8.7    1

>(BJ372299) Dictyostelium discoideum cDNA clone:ddc12d02, 3' end,
           single read.
          Length = 233

 Score = 81.8 bits (41), Expect = 1e-11
 Identities = 167/167 (100%)
 Strand = Plus / Minus


Query: 1   agattaacaanatnaacnagntnaacaanntnnacnagntnaacaaaatnaacnagntca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 233 agattaacaanatnaacnagntnaacaanntnnacnagntnaacaaaatnaacnagntca 174


Query: 61  acaaaatnnacnagntnnacaaaatnnacnagntcnacaaaatnnacnagntcnacaaaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 173 acaaaatnnacnagntnnacaaaatnnacnagntcnacaaaatnnacnagntcnacaaaa 114


Query: 121 tnnacnagnncaacaaaatccccnagntcnacnagntcnacaaaacc 167
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113 tnnacnagnncaacaaaatccccnagntcnacnagntcnacaaaacc 67

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 29,098,888
Number of extensions: 1300321
Number of successful extensions: 47489
Number of sequences better than 10.0: 32
Length of query: 232
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 209
Effective length of database: 99,442,330,388
Effective search space: 20783447051092
Effective search space used: 20783447051092
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.14
Homology vs Protein 
Query= Contig-U00819-1 (Contig-U00819-1Q) /CSM_Contig/Contig-U00819-1Q.Seq.d
         (232 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q5UQ57) RecName: Full=Probable ubiquitin-conjugating enzyme E2 ...    35   0.63
AC117070_42(AC117070|pid:none) Dictyostelium discoideum chromoso...    32   6.9

>(Q5UQ57) RecName: Full=Probable ubiquitin-conjugating enzyme E2
           L709;          EC=6.3.2.19; AltName:
           Full=Ubiquitin-protein ligase; AltName: Full=Ubiquitin
           carrier protein;  &AY653733_709(AY653733|pid:none)
          Length = 388

 Score = 35.4 bits (80), Expect = 0.63
 Identities = 20/40 (50%), Positives = 21/40 (52%)
 Frame = +1

Query: 7   TXXTXXTXXTXXTKXTXSTKXTXXTKXTXSTKXTXSTKXT 126
           T  T  T  T  TK T STK T  TK T STK + S K T
Sbjct: 332 TKPTKPTKSTKTTKSTKSTKSTKSTKPTESTKSSRSVKTT 371

Lambda     K      H
   0.280   0.0894    0.201

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3236559
Number of Hits to DB: 52,842,720
Number of extensions: 9643232
Number of successful extensions: 57
Number of sequences better than 10.0: 2
Number of HSP's gapped: 49
Number of HSP's successfully gapped: 2
Length of query: 77
Length of database: 1,051,180,864
Length adjustment: 48
Effective length of query: 29
Effective length of database: 895,826,032
Effective search space: 25978954928
Effective search space used: 25978954928
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 6.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (20.0 bits)
S2: 27 (15.0 bits)
PSORT 

 psg: 0.82  gvh: 0.45  alm: 0.68  top: 0.53  tms: 0.00  mit: 0.67  mip: 0.00
 nuc: 0.12  erl: 0.00  erm: 0.40  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 72.0 %: mitochondrial
	 20.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: cytoplasmic

>> prediction for Contig-U00819-1 is mit
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 1
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0