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Dicty_cDB
Contig List | Clone List | cDNA Library List
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U13701-1
Contig ID Contig-U13701-1
Contig update 2002.12.18
Contig sequence 
>Contig-U13701-1 (Contig-U13701-1Q) /CSM_Contig/Contig-U13701-1Q.Seq.d
NNNNNNNNNNCTGATTTANGTTNCCNCNNTGCCGGNCAAGNTTTNCCNCA
ANGNGTTTTNGATCANTGGGGTTCAANTGGNGNTGTCAANAAAAATAAAA
AANCCNCTGAAGTNGCTTTANCCCCCAAAAAAAAAAAANGTTTANCCCC
Gap no gap
Contig length 149
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 U13701
List of clone(s) 

est1=VHJ655Z,1,140
Translated Amino Acid sequence 
XXXXDLXXXXAGQXXPQXVXDXWGSXGXVXKNKKXXEVALXPKKKKXLX
Translated Amino Acid sequence (All Frames) 
Frame A:
XXXXDLXXXXAGQXXPQXVXDXWGSXGXVXKNKKXXEVALXPKKKKXLX


Frame B:
xxxlixvxxxpxkxxxxxfxixgvqxxxsxkikxplkxlxppkkkxvxp


Frame C:
xxx*fxxpxcrxxfxxxxfxsxgfxwxcqxk*kxx*sxfxpqkkkxfxp
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U13701-1 (Contig-U13701-1Q)
/CSM_Contig/Contig-U13701-1Q.Seq.d
         (149 letters)

Database: CSM
           6905 sequences; 5,674,871 total letters


 ***** No hits found ******

  Database: CSM
    Posted date:  Jun 9, 2004  7:35 PM
  Number of letters in database: 5,674,871
  Number of sequences in database:  6905
  
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: 0
Number of Sequences: 6905
Number of extensions: 0
Number of successful extensions: 0
Number of sequences better than 10.0: 0
length of query: 149
length of database: 5,674,871
effective HSP length: 15
effective length of query: 134
effective length of database: 5,571,296
effective search space: 746553664
effective search space used: 746553664
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 13 (26.3 bits)
dna update 2008.12.13
Homology vs DNA 
Query= Contig-U13701-1 (Contig-U13701-1Q) /CSM_Contig/Contig-U13701-1Q.Seq.d
         (149 letters)

Database: ddbj_A
           92,845,959 sequences; 95,242,211,685 total letters

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

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

(BJ442684) Dictyostelium discoideum cDNA clone:ddv50m14, 3' ...   105   4e-19  1
(BJ445395) Dictyostelium discoideum cDNA clone:ddv59h07, 3' ...    98   1e-16  1
(BJ444824) Dictyostelium discoideum cDNA clone:ddv57f16, 3' ...    98   1e-16  1
(BJ443069) Dictyostelium discoideum cDNA clone:ddv51f21, 3' ...    98   1e-16  1
(BJ441608) Dictyostelium discoideum cDNA clone:ddv47b10, 3' ...    98   1e-16  1
(BJ438296) Dictyostelium discoideum cDNA clone:ddv37a18, 3' ...    98   1e-16  1
(BJ437542) Dictyostelium discoideum cDNA clone:ddv34h16, 3' ...    98   1e-16  1
(BJ436504) Dictyostelium discoideum cDNA clone:ddv31j12, 3' ...    98   1e-16  1
(BJ436560) Dictyostelium discoideum cDNA clone:ddv31d18, 3' ...    96   4e-16  1
(BJ438156) Dictyostelium discoideum cDNA clone:ddv36e14, 3' ...    94   2e-15  1
(BJ446776) Dictyostelium discoideum cDNA clone:ddv63f21, 3' ...    92   6e-15  1
(BJ446527) Dictyostelium discoideum cDNA clone:ddv63b03, 3' ...    92   6e-15  1
(BJ446477) Dictyostelium discoideum cDNA clone:ddv62h24, 3' ...    92   6e-15  1
(BJ445975) Dictyostelium discoideum cDNA clone:ddv61a12, 3' ...    92   6e-15  1
(BJ445112) Dictyostelium discoideum cDNA clone:ddv58a14, 3' ...    92   6e-15  1
(BJ444068) Dictyostelium discoideum cDNA clone:ddv55j04, 3' ...    92   6e-15  1
(BJ444020) Dictyostelium discoideum cDNA clone:ddv54o20, 3' ...    92   6e-15  1
(BJ442986) Dictyostelium discoideum cDNA clone:ddv51e17, 3' ...    92   6e-15  1
(BJ442677) Dictyostelium discoideum cDNA clone:ddv50k18, 3' ...    92   6e-15  1
(BJ441557) Dictyostelium discoideum cDNA clone:ddv47g06, 3' ...    92   6e-15  1
(BJ440967) Dictyostelium discoideum cDNA clone:ddv45c12, 3' ...    92   6e-15  1
(BJ440688) Dictyostelium discoideum cDNA clone:ddv44n12, 3' ...    92   6e-15  1
(BJ440289) Dictyostelium discoideum cDNA clone:ddv43a07, 3' ...    92   6e-15  1
(BJ439118) Dictyostelium discoideum cDNA clone:ddv39b15, 3' ...    92   6e-15  1
(BJ438649) Dictyostelium discoideum cDNA clone:ddv38f06, 3' ...    92   6e-15  1
(BJ438648) Dictyostelium discoideum cDNA clone:ddv38f05, 3' ...    92   6e-15  1
(BJ438467) Dictyostelium discoideum cDNA clone:ddv37d01, 3' ...    92   6e-15  1
(BJ438331) Dictyostelium discoideum cDNA clone:ddv37i14, 3' ...    92   6e-15  1
(BJ438122) Dictyostelium discoideum cDNA clone:ddv36n08, 3' ...    92   6e-15  1
(BJ438072) Dictyostelium discoideum cDNA clone:ddv36d09, 3' ...    92   6e-15  1
(BJ438022) Dictyostelium discoideum cDNA clone:ddv36i06, 3' ...    92   6e-15  1
(BJ437556) Dictyostelium discoideum cDNA clone:ddv34k14, 3' ...    92   6e-15  1
(BJ384795) Dictyostelium discoideum cDNA clone:ddc50b19, 3' ...    92   6e-15  1
(BJ446625) Dictyostelium discoideum cDNA clone:ddv63f12, 3' ...    90   2e-14  1
(BJ445751) Dictyostelium discoideum cDNA clone:ddv60d14, 3' ...    90   2e-14  1
(BJ444699) Dictyostelium discoideum cDNA clone:ddv57o01, 3' ...    90   2e-14  1
(BJ438532) Dictyostelium discoideum cDNA clone:ddv37o04, 3' ...    90   2e-14  1
(BJ441732) Dictyostelium discoideum cDNA clone:ddv47m15, 3' ...    88   9e-14  1
(BJ351843) Dictyostelium discoideum cDNA clone:dda44d24, 3' ...    88   9e-14  1
(BJ446714) Dictyostelium discoideum cDNA clone:ddv63i15, 3' ...    86   4e-13  1
(BJ446549) Dictyostelium discoideum cDNA clone:ddv63f06, 3' ...    86   4e-13  1
(BJ446489) Dictyostelium discoideum cDNA clone:ddv62k20, 3' ...    86   4e-13  1
(BJ445859) Dictyostelium discoideum cDNA clone:ddv60i24, 3' ...    86   4e-13  1
(BJ445087) Dictyostelium discoideum cDNA clone:ddv58l09, 3' ...    86   4e-13  1
(BJ443333) Dictyostelium discoideum cDNA clone:ddv52i15, 3' ...    86   4e-13  1
(BJ443123) Dictyostelium discoideum cDNA clone:ddv51p24, 3' ...    86   4e-13  1
(BJ443103) Dictyostelium discoideum cDNA clone:ddv51m20, 3' ...    86   4e-13  1
(BJ443009) Dictyostelium discoideum cDNA clone:ddv51k13, 3' ...    86   4e-13  1
(BJ442341) Dictyostelium discoideum cDNA clone:ddv49g14, 3' ...    86   4e-13  1
(BJ442040) Dictyostelium discoideum cDNA clone:ddv48l16, 3' ...    86   4e-13  1
(BJ441957) Dictyostelium discoideum cDNA clone:ddv48j09, 3' ...    86   4e-13  1
(BJ441473) Dictyostelium discoideum cDNA clone:ddv46g20, 3' ...    86   4e-13  1
(BJ441095) Dictyostelium discoideum cDNA clone:ddv45l17, 3' ...    86   4e-13  1
(BJ441049) Dictyostelium discoideum cDNA clone:ddv45c18, 3' ...    86   4e-13  1
(BJ439054) Dictyostelium discoideum cDNA clone:ddv39e10, 3' ...    86   4e-13  1
(BJ438798) Dictyostelium discoideum cDNA clone:ddv38c13, 3' ...    86   4e-13  1
(BJ438202) Dictyostelium discoideum cDNA clone:ddv36n13, 3' ...    86   4e-13  1
(BJ437660) Dictyostelium discoideum cDNA clone:ddv34p19, 3' ...    86   4e-13  1
(BJ437329) Dictyostelium discoideum cDNA clone:ddv33m22, 3' ...    86   4e-13  1
(BJ437125) Dictyostelium discoideum cDNA clone:ddv33d11, 3' ...    86   4e-13  1
(BJ436718) Dictyostelium discoideum cDNA clone:ddv32d04, 3' ...    86   4e-13  1
(BJ436659) Dictyostelium discoideum cDNA clone:ddv31i21, 3' ...    86   4e-13  1
(BJ404982) Dictyostelium discoideum cDNA clone:dds30b07, 3' ...    86   4e-13  1
(BJ379824) Dictyostelium discoideum cDNA clone:ddc36i03, 3' ...    86   4e-13  1
(BJ446481) Dictyostelium discoideum cDNA clone:ddv62i22, 3' ...    84   1e-12  1
(BJ442205) Dictyostelium discoideum cDNA clone:ddv49l01, 3' ...    84   1e-12  1
(BJ440245) Dictyostelium discoideum cDNA clone:ddv43h04, 3' ...    84   1e-12  1
(BJ438263) Dictyostelium discoideum cDNA clone:ddv36k23, 3' ...    84   1e-12  1
(BJ438062) Dictyostelium discoideum cDNA clone:ddv36b07, 3' ...    84   1e-12  1
(BJ446674) Dictyostelium discoideum cDNA clone:ddv63a16, 3' ...    82   6e-12  1
(BJ445842) Dictyostelium discoideum cDNA clone:ddv60f22, 3' ...    82   6e-12  1
(BJ443241) Dictyostelium discoideum cDNA clone:ddv52g11, 3' ...    82   6e-12  1
(BJ442270) Dictyostelium discoideum cDNA clone:ddv49j08, 3' ...    82   6e-12  1
(BJ441231) Dictyostelium discoideum cDNA clone:ddv46g06, 3' ...    82   6e-12  1
(BJ438829) Dictyostelium discoideum cDNA clone:ddv38i16, 3' ...    82   6e-12  1
(BJ438662) Dictyostelium discoideum cDNA clone:ddv38i03, 3' ...    82   6e-12  1
(BJ436968) Dictyostelium discoideum cDNA clone:ddv32d23, 3' ...    82   6e-12  1
(BJ446637) Dictyostelium discoideum cDNA clone:ddv63i09, 3' ...    80   2e-11  1
(BJ446374) Dictyostelium discoideum cDNA clone:ddv62c17, 3' ...    80   2e-11  1
(BJ446282) Dictyostelium discoideum cDNA clone:ddv62b08, 3' ...    80   2e-11  1
(BJ446174) Dictyostelium discoideum cDNA clone:ddv61k23, 3' ...    80   2e-11  1
(BJ446083) Dictyostelium discoideum cDNA clone:ddv61h18, 3' ...    80   2e-11  1
(BJ445637) Dictyostelium discoideum cDNA clone:ddv60k06, 3' ...    80   2e-11  1
(BJ445368) Dictyostelium discoideum cDNA clone:ddv59c07, 3' ...    80   2e-11  1
(BJ444974) Dictyostelium discoideum cDNA clone:ddv58e04, 3' ...    80   2e-11  1
(BJ442683) Dictyostelium discoideum cDNA clone:ddv50m13, 3' ...    80   2e-11  1
(BJ441757) Dictyostelium discoideum cDNA clone:ddv47c23, 3' ...    80   2e-11  1
(BJ441621) Dictyostelium discoideum cDNA clone:ddv47e10, 3' ...    80   2e-11  1
(BJ441224) Dictyostelium discoideum cDNA clone:ddv46f04, 3' ...    80   2e-11  1
(BJ438924) Dictyostelium discoideum cDNA clone:ddv38l22, 3' ...    80   2e-11  1
(BJ438719) Dictyostelium discoideum cDNA clone:ddv38c10, 3' ...    80   2e-11  1
(BJ438673) Dictyostelium discoideum cDNA clone:ddv38k02, 3' ...    80   2e-11  1
(BJ438479) Dictyostelium discoideum cDNA clone:ddv37f02, 3' ...    80   2e-11  1
(BJ437148) Dictyostelium discoideum cDNA clone:ddv33i09, 3' ...    80   2e-11  1
(BJ436837) Dictyostelium discoideum cDNA clone:ddv32j12, 3' ...    80   2e-11  1
(BJ436751) Dictyostelium discoideum cDNA clone:ddv32j05, 3' ...    80   2e-11  1
(BJ436553) Dictyostelium discoideum cDNA clone:ddv31c17, 3' ...    80   2e-11  1
(BJ436399) Dictyostelium discoideum cDNA clone:ddv31e05, 3' ...    80   2e-11  1
(BJ406830) Dictyostelium discoideum cDNA clone:dds36h14, 3' ...    80   2e-11  1
(BJ385929) Dictyostelium discoideum cDNA clone:ddc56i16, 3' ...    80   2e-11  1

>(BJ442684) Dictyostelium discoideum cDNA clone:ddv50m14, 3' end,
           single read.
          Length = 140

 Score =  105 bits (53), Expect = 4e-19
 Identities = 116/116 (100%)
 Strand = Plus / Minus


Query: 11  ctgatttangttnccncnntgccggncaagntttnccncaangngttttngatcantggg 70
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 140 ctgatttangttnccncnntgccggncaagntttnccncaangngttttngatcantggg 81


Query: 71  gttcaantggngntgtcaanaaaaataaaaaanccnctgaagtngctttanccccc 126
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 80  gttcaantggngntgtcaanaaaaataaaaaanccnctgaagtngctttanccccc 25

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 41,602,208
Number of extensions: 6626649
Number of successful extensions: 1878669
Number of sequences better than 10.0: 995
Length of query: 149
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 127
Effective length of database: 93,199,600,587
Effective search space: 11836349274549
Effective search space used: 11836349274549
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)
protein update 2009. 7. 8
Homology vs Protein 
Query= Contig-U13701-1 (Contig-U13701-1Q) /CSM_Contig/Contig-U13701-1Q.Seq.d
         (149 letters)

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

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

 ***** No hits found ******

Lambda     K      H
   0.306    0.130    0.383

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: 83,061,514
Number of extensions: 4064432
Number of successful extensions: 179
Number of sequences better than 10.0: 0
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 0
Length of query: 49
Length of database: 1,051,180,864
Length adjustment: 22
Effective length of query: 27
Effective length of database: 979,976,566
Effective search space: 26459367282
Effective search space used: 26459367282
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.1 bits)
S2: 25 (14.2 bits)
PSORT 

 psg: 0.75  gvh: 0.40  alm: 0.66  top: 0.53  tms: 0.00  mit: 0.16  mip: 0.00
 nuc: 0.13  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 

	 60.0 %: nuclear
	 28.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal

>> prediction for Contig-U13701-1 is nuc
VS (DIR, S) 0
VH (FL, L) 1
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) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0