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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-U14579-1
Contig ID Contig-U14579-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14579-1 (Contig-U14579-1Q) /CSM_Contig/Contig-U14579-1Q.Seq.d
NNNNNNNNNNTTTNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTTTTTTTTTTTNAGGGAAAAAACNNANNAATAGTAATAATAAAAACC
GTAATAATAAAA
Gap no gap
Contig length 112
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 U14579
List of clone(s) 

est1=SHE434Z,1,103
Translated Amino Acid sequence 
XXXXXFFFFFFFFFFFFFFFFXGKKXXNSNNKNRNNK
Translated Amino Acid sequence (All Frames) 
Frame A:
XXXXXFFFFFFFFFFFFFFFFXGKKXXNSNNKNRNNK


Frame B:
xxxfxffffffffffffffffxgknxxiviiktviik


Frame C:
xxxxffffffffffffffffxrektxx****kp***
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14579-1 (Contig-U14579-1Q)
/CSM_Contig/Contig-U14579-1Q.Seq.d
         (112 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14579-1 (Contig-U14579-1Q) /CSM_Contig/Conti...    70  5e-13
Contig-U13777-1 (Contig-U13777-1Q) /CSM_Contig/Conti...    56  8e-09
Contig-U12695-1 (Contig-U12695-1Q) /CSM_Contig/Conti...    46  7e-06
Contig-U14817-1 (Contig-U14817-1Q) /CSM_Contig/Conti...    38  0.002
Contig-U01374-1 (Contig-U01374-1Q) /CSM_Contig/Conti...    38  0.002
Contig-U09385-1 (Contig-U09385-1Q) /CSM_Contig/Conti...    36  0.007
Contig-U14716-1 (Contig-U14716-1Q) /CSM_Contig/Conti...    34  0.028
Contig-U14519-1 (Contig-U14519-1Q) /CSM_Contig/Conti...    34  0.028
Contig-U14509-1 (Contig-U14509-1Q) /CSM_Contig/Conti...    34  0.028
Contig-U12729-1 (Contig-U12729-1Q) /CSM_Contig/Conti...    34  0.028

>Contig-U14579-1 (Contig-U14579-1Q) /CSM_Contig/Contig-U14579-1Q.Seq.d
          Length = 112

 Score = 69.9 bits (35), Expect = 5e-13
 Identities = 47/47 (100%)
 Strand = Plus / Plus

                                                          
Query: 66  agggaaaaaacnnannaatagtaataataaaaaccgtaataataaaa 112
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66  agggaaaaaacnnannaatagtaataataaaaaccgtaataataaaa 112


>Contig-U13777-1 (Contig-U13777-1Q) /CSM_Contig/Contig-U13777-1Q.Seq.d
          Length = 129

 Score = 56.0 bits (28), Expect = 8e-09
 Identities = 30/31 (96%)
 Strand = Plus / Plus

                                          
Query: 82  aatagtaataataaaaaccgtaataataaaa 112
           |||||||||||||||||| ||||||||||||
Sbjct: 76  aatagtaataataaaaacngtaataataaaa 106


 Score = 44.1 bits (22), Expect = 3e-05
 Identities = 24/25 (96%)
 Strand = Plus / Plus

                                    
Query: 86  gtaataataaaaaccgtaataataa 110
           ||||||||||||| |||||||||||
Sbjct: 95  gtaataataaaaancgtaataataa 119


>Contig-U12695-1 (Contig-U12695-1Q) /CSM_Contig/Contig-U12695-1Q.Seq.d
          Length = 974

 Score = 46.1 bits (23), Expect = 7e-06
 Identities = 29/31 (93%)
 Strand = Plus / Plus

                                          
Query: 82  aatagtaataataaaaaccgtaataataaaa 112
           |||||||||||||||||  ||||||||||||
Sbjct: 913 aatagtaataataaaaaaagtaataataaaa 943


 Score = 30.2 bits (15), Expect = 0.43
 Identities = 15/15 (100%)
 Strand = Plus / Plus

                          
Query: 85  agtaataataaaaac 99
           |||||||||||||||
Sbjct: 931 agtaataataaaaac 945


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 17/18 (94%)
 Strand = Plus / Plus

                             
Query: 82  aatagtaataataaaaac 99
           |||| |||||||||||||
Sbjct: 950 aataataataataaaaac 967


  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: 4274
Number of Sequences: 6905
Number of extensions: 4274
Number of successful extensions: 1763
Number of sequences better than 10.0: 707
length of query: 112
length of database: 5,674,871
effective HSP length: 14
effective length of query: 98
effective length of database: 5,578,201
effective search space: 546663698
effective search space used: 546663698
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 2008.12.26
Homology vs DNA 
Query= Contig-U14579-1 (Contig-U14579-1Q) /CSM_Contig/Contig-U14579-1Q.Seq.d
         (112 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

(BJ405607) Dictyostelium discoideum cDNA clone:dds32d10, 3' ...    70   2e-08  1
(AU270508) Dictyostelium discoideum vegetative cDNA clone:VS...    56   2e-04  1
(BJ445439) Dictyostelium discoideum cDNA clone:ddv59p10, 3' ...    56   2e-04  1
(BX255909) Zebrafish DNA sequence from clone CH211-235O3 in ...    50   0.014  1
(EB222306) PEG002-C-102648-502 Normalized Pedal-Pleural Gang...    38   0.047  2
(BJ445130) Dictyostelium discoideum cDNA clone:ddv58d15, 3' ...    48   0.057  1
(BJ442139) Dictyostelium discoideum cDNA clone:ddv48o23, 3' ...    48   0.057  1
(DE426446) Bombyx mori genomic DNA, Fosmid clone:GBMFno9_j04...    46   0.22   1
(DY235913) ZM_BFb0246O04.f ZM_BFb Zea mays cDNA 3', mRNA seq...    46   0.22   1
(BJ446744) Dictyostelium discoideum cDNA clone:ddv63p13, 3' ...    46   0.22   1
(BJ445845) Dictyostelium discoideum cDNA clone:ddv60g19, 3' ...    46   0.22   1
(BJ442539) Dictyostelium discoideum cDNA clone:ddv50o05, 3' ...    46   0.22   1
(BJ440965) Dictyostelium discoideum cDNA clone:ddv45c10, 3' ...    46   0.22   1
(BJ436524) Dictyostelium discoideum cDNA clone:ddv31n10, 3' ...    46   0.22   1
(BJ409746) Dictyostelium discoideum cDNA clone:dds42i02, 3' ...    46   0.22   1
(CU012054) Zebrafish DNA sequence from clone DKEYP-117D7 in ...    44   0.89   1
(BX294162) Zebrafish DNA sequence from clone CH211-270C5 in ...    44   0.89   1
(AC158345) Mus musculus chromosome 7, clone RP23-271M19, com...    44   0.89   1
(AC113312) Mus musculus chromosome 7, clone RP23-440K7, comp...    44   0.89   1
(DJ386590) Diagnosis of Diseases Associated with Metastasis.       44   0.89   1
(AX348952) Sequence 410 from Patent WO0202807.                     44   0.89   1
(AX281386) Sequence 50 from Patent WO0177376.                      44   0.89   1
(AC097263) Homo sapiens X BAC RP11-298C3 (Roswell Park Cance...    44   0.89   1
(AC144623) Mus musculus chromosome UNK clone RP24-230B22, WO...    44   0.89   1
(AC079982) Homo sapiens chromosome X clone RP11-298C3, *** S...    44   0.89   1
(AC191030) Zea mays chromosome 2 clone CH201-125A12; ZMMBBc0...    44   0.89   1
(AC190521) Zea mays chromosome 2 clone CH201-173O16; ZMMBBc0...    44   0.89   1
(BH096098) RPCI-24-298B19.TV RPCI-24 Mus musculus genomic cl...    44   0.89   1
(CZ854918) OC__Ba0245L19.f OC__Ba Oryza coarctata genomic cl...    44   0.89   1
(CZ782271) OC__Ba0144B20.f OC__Ba Oryza coarctata genomic cl...    44   0.89   1
(CR105687) Reverse strand read from insert in 5'HPRT inserti...    44   0.89   1
(CC722314) OGWHL92TV ZM_0.7_1.5_KB Zea mays genomic clone ZM...    44   0.89   1
(DN201539) USDA-FP_136630 Asian citrus psyllid Diaphorina ci...    44   0.89   1
(FE748611) CAYC507.g1 CAYC Petrolisthes cinctipes heart, ner...    44   0.89   1
(DN893508) nao42a01.y1 Zebrafish Posterior segment. Unnormal...    38   1.9    2
(CR388141) Zebrafish DNA sequence from clone DKEY-28J8 in li...    42   3.5    1
(BX784036) Zebrafish DNA sequence from clone CH211-223P14 in...    42   3.5    1
(BX511260) Zebrafish DNA sequence from clone CH211-121A2 in ...    42   3.5    1
(BX323071) Zebrafish DNA sequence from clone DKEYP-51F12.          42   3.5    1
(AL929082) Zebrafish DNA sequence from clone CH211-113P18.         42   3.5    1
(AL805923) Mouse DNA sequence from clone RP23-65B16 on chrom...    42   3.5    1
(AC151968) Mus musculus BAC clone RP24-247B20 from chromosom...    42   3.5    1
(AC140110) Mus musculus BAC clone RP23-29H6 from 6, complete...    42   3.5    1
(AC134324) Mus musculus BAC clone RP24-532P18 from 9, comple...    42   3.5    1
(Y13119) Dictyostelium discoideum mRNA for CudA protein.           42   3.5    1
(AC133254) Rattus norvegicus clone CH230-315F9, *** SEQUENCI...    42   3.5    1
(AC118305) Rattus norvegicus clone CH230-253O8, *** SEQUENCI...    42   3.5    1
(AC115674) Rattus norvegicus clone CH230-71M10, *** SEQUENCI...    42   3.5    1
(AC108607) Rattus norvegicus clone CH230-272G21, *** SEQUENC...    42   3.5    1
(CU905503) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   3.5    1
(CU896634) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   3.5    1
(CU856137) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   3.5    1
(CU695002) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   3.5    1
(CU302370) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    42   3.5    1
(CU074399) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    42   3.5    1
(CR940366) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   3.5    1
(CR848834) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   3.5    1
(CR751541) Zebrafish DNA sequence *** SEQUENCING CANCELLED *...    42   3.5    1
(AC210310) Zea mays chromosome 9 clone CH201-246G2; ZMMBBc02...    42   3.5    1
(AC184920) Bos taurus clone CH240-200I15, WORKING DRAFT SEQU...    42   3.5    1
(AC184580) Strongylocentrotus purpuratus clone R3-3056O7, WO...    42   3.5    1
(AC178096) Strongylocentrotus purpuratus clone R3-1117D12, W...    42   3.5    1
(AC177103) Strongylocentrotus purpuratus clone R3-4012P13, W...    42   3.5    1
(AC176540) Strongylocentrotus purpuratus clone R3-3075N13, W...    42   3.5    1
(AZ488575) 1M0318L19R Mouse 10kb plasmid UUGC1M library Mus ...    42   3.5    1
(ED306100) AUAC-aat47g01.b1 Ascaris suum whole genome shotgu...    42   3.5    1
(DH684076) Rattus norvegicus DNA, BAC clone: RNB1-238G15, 3'...    42   3.5    1
(CT442060) Sus scrofa genomic clone CH242-499K18, genomic su...    42   3.5    1
(CE033119) tigr-gss-dog-17000347948865 Dog Library Canis lup...    42   3.5    1
(BX229941) Danio rerio genomic clone DKEY-54D12, genomic sur...    42   3.5    1
(BX169748) Danio rerio genomic clone DKEY-176O19, genomic su...    42   3.5    1
(BX163107) Danio rerio genomic clone DKEY-168P4, genomic sur...    42   3.5    1
(AG353303) Mus musculus molossinus DNA, clone:MSMg01-151A09....    42   3.5    1
(DN564657) 90838967 Sea Urchin primary mesenchyme cell cDNA ...    42   3.5    1
(CT779802) Paramecium tetraurelia 5-PRIME EST from clone LK0...    42   3.5    1
(CT763131) Paramecium tetraurelia 5-PRIME EST from clone LK0...    42   3.5    1
(CT632253) Danio rerio EST, clone ZF_mu_71h09 3'.                  42   3.5    1
(CT632252) Danio rerio EST, clone ZF_mu_71h09 5'.                  42   3.5    1
(CN522916) GQ0123.B3_E15 GQ012 Populus trichocarpa x Populus...    42   3.5    1
(CF539752) UI-M-GV0-cht-k-10-0-UI.r1 NIH_BMAP_GV0 Mus muscul...    42   3.5    1
(BJ384941) Dictyostelium discoideum cDNA clone:ddc51d07, 3' ...    42   3.5    1
(BJ383931) Dictyostelium discoideum cDNA clone:ddc47o17, 3' ...    42   3.5    1
(BJ380481) Dictyostelium discoideum cDNA clone:ddc38f09, 3' ...    42   3.5    1
(BJ357610) Dictyostelium discoideum cDNA clone:dda64i05, 3' ...    42   3.5    1
(BJ352867) Dictyostelium discoideum cDNA clone:dda48o01, 3' ...    42   3.5    1
(BJ352642) Dictyostelium discoideum cDNA clone:dda47m12, 3' ...    42   3.5    1
(BJ349875) Dictyostelium discoideum cDNA clone:dda37n21, 3' ...    42   3.5    1
(FC304199) CAIC14004.rev CAIC Nematostella vectensis Nemve w...    42   3.5    1
(BX072539) Zebrafish DNA sequence from clone CH211-286O24 in...    32   6.8    2
(EB247584) PEG003-C-030737-501 Normalized Pedal-Pleural Gang...    30   8.8    2
(EB221310) PEG002-C-101461-501 Normalized Pedal-Pleural Gang...    30   8.8    2
(EB250200) PEG003-C-032744-501 Normalized Pedal-Pleural Gang...    30   8.8    2
(EB201801) PEG002-C-109088-501 Normalized Pedal-Pleural Gang...    30   8.9    2
(EB201595) PEG002-C-100566-501 Normalized Pedal-Pleural Gang...    30   8.9    2
(EB236531) PEG003-C-211713-501 Normalized Pedal-Pleural Gang...    30   8.9    2

>(BJ405607) Dictyostelium discoideum cDNA clone:dds32d10, 3' end,
           single read.
          Length = 103

 Score = 69.9 bits (35), Expect = 2e-08
 Identities = 47/47 (100%)
 Strand = Plus / Minus


Query: 66  agggaaaaaacnnannaatagtaataataaaaaccgtaataataaaa 112
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 48  agggaaaaaacnnannaatagtaataataaaaaccgtaataataaaa 2

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 62,971,014
Number of extensions: 5629867
Number of successful extensions: 1272560
Number of sequences better than 10.0: 96
Length of query: 112
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 90
Effective length of database: 93,199,600,587
Effective search space: 8387964052830
Effective search space used: 8387964052830
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)
protein update 2009. 7.12
Homology vs Protein 
Query= Contig-U14579-1 (Contig-U14579-1Q) /CSM_Contig/Contig-U14579-1Q.Seq.d
         (112 letters)

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

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

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

Lambda     K      H
   0.304    0.171    0.587

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: 13,826,757
Number of extensions: 279266
Number of successful extensions: 7
Number of sequences better than 10.0: 0
Number of HSP's gapped: 7
Number of HSP's successfully gapped: 0
Length of query: 37
Length of database: 1,051,180,864
Length adjustment: 11
Effective length of query: 26
Effective length of database: 1,015,578,715
Effective search space: 26405046590
Effective search space used: 26405046590
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (20.5 bits)
S2: 24 (13.9 bits)
PSORT 

 psg: 1.06  gvh: 0.46  alm: 0.20  top: 0.80  tms: 0.07  mit: 0.35  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 1.00  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: 1.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 48.0 %: nuclear
	 28.0 %: cytoplasmic
	  8.0 %: Golgi
	  8.0 %: mitochondrial
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U14579-1 is nuc
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) 1
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0