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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U14371-1
Contig ID Contig-U14371-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14371-1 (Contig-U14371-1Q) /CSM_Contig/Contig-U14371-1Q.Seq.d
ATAAATATACAAATTAATACAAAAAAGAAATTGAATGACGATTTTTTAAA
TCATGTCGCAATTTAAAATTTTAATTTAATTTATTTTTTTTTTTCTCANC
CTTTTTTTTTTTTTTTTNCNTTTTTNCNNNNNNNNN
Gap no gap
Contig length 136
Chromosome number (1..6, M) 6
Chromosome length 3595308
Start point 1210297
End point 1210171
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U14371
List of clone(s) 

est1=CHJ838F,1,127
Translated Amino Acid sequence 
iniqintkkklnddflnhvai*NFNLIYFFFSXPFFFFFXFXXXX
Translated Amino Acid sequence (All Frames) 
Frame A:
iniqintkkklnddflnhvai*NFNLIYFFFSXPFFFFFXFXXXX


Frame B:
*iykliqkrn*mtif*imsqfkili*fiffflxlffffxxfxxxx


Frame C:
kytn*ykkeie*rffkscrnlkf*fnlffffsxfffffxxfxxx
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14371-1 (Contig-U14371-1Q)
/CSM_Contig/Contig-U14371-1Q.Seq.d
         (136 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14371-1 (Contig-U14371-1Q) /CSM_Contig/Conti...   165  1e-41
Contig-U01481-1 (Contig-U01481-1Q) /CSM_Contig/Conti...    42  1e-04
Contig-U14174-1 (Contig-U14174-1Q) /CSM_Contig/Conti...    38  0.002
Contig-U14794-1 (Contig-U14794-1Q) /CSM_Contig/Conti...    36  0.009
Contig-U13855-1 (Contig-U13855-1Q) /CSM_Contig/Conti...    36  0.009
Contig-U13050-1 (Contig-U13050-1Q) /CSM_Contig/Conti...    36  0.009
Contig-U12259-1 (Contig-U12259-1Q) /CSM_Contig/Conti...    36  0.009
Contig-U11908-1 (Contig-U11908-1Q) /CSM_Contig/Conti...    36  0.009
Contig-U06495-1 (Contig-U06495-1Q) /CSM_Contig/Conti...    36  0.009
Contig-U13513-1 (Contig-U13513-1Q) /CSM_Contig/Conti...    34  0.035

>Contig-U14371-1 (Contig-U14371-1Q) /CSM_Contig/Contig-U14371-1Q.Seq.d
          Length = 136

 Score =  165 bits (83), Expect = 1e-41
 Identities = 83/83 (100%)
 Strand = Plus / Plus

                                                                      
Query: 1  ataaatatacaaattaatacaaaaaagaaattgaatgacgattttttaaatcatgtcgca 60
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  ataaatatacaaattaatacaaaaaagaaattgaatgacgattttttaaatcatgtcgca 60

                                 
Query: 61 atttaaaattttaatttaattta 83
          |||||||||||||||||||||||
Sbjct: 61 atttaaaattttaatttaattta 83


>Contig-U01481-1 (Contig-U01481-1Q) /CSM_Contig/Contig-U01481-1Q.Seq.d
          Length = 1101

 Score = 42.1 bits (21), Expect = 1e-04
 Identities = 21/21 (100%)
 Strand = Plus / Minus

                                
Query: 63  ttaaaattttaatttaattta 83
           |||||||||||||||||||||
Sbjct: 876 ttaaaattttaatttaattta 856


 Score = 28.2 bits (14), Expect = 2.1
 Identities = 14/14 (100%)
 Strand = Plus / Plus

                         
Query: 63  ttaaaattttaatt 76
           ||||||||||||||
Sbjct: 865 ttaaaattttaatt 878


>Contig-U14174-1 (Contig-U14174-1Q) /CSM_Contig/Contig-U14174-1Q.Seq.d
          Length = 1272

 Score = 38.2 bits (19), Expect = 0.002
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                               
Query: 65   aaaattttaatttaattta 83
            |||||||||||||||||||
Sbjct: 1237 aaaattttaatttaattta 1219


  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: 4721
Number of Sequences: 6905
Number of extensions: 4721
Number of successful extensions: 1745
Number of sequences better than 10.0: 604
length of query: 136
length of database: 5,674,871
effective HSP length: 14
effective length of query: 122
effective length of database: 5,578,201
effective search space: 680540522
effective search space used: 680540522
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 2008.12.21
Homology vs DNA 
Query= Contig-U14371-1 (Contig-U14371-1Q) /CSM_Contig/Contig-U14371-1Q.Seq.d
         (136 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

(BJ367109) Dictyostelium discoideum cDNA clone:ddc41l10, 5' ...    80   2e-11  1
(EX881326) CcLXBa34k07n1 ECB Cyprinus carpio cDNA clone 34k0...    52   0.005  1
(AC222222) Bos taurus clone CH240-412H4, WORKING DRAFT SEQUE...    48   0.072  1
(AC185933) Bos taurus clone RP42-61J9, WORKING DRAFT SEQUENC...    48   0.072  1
(AC185786) Bos taurus clone RP42-192N18, WORKING DRAFT SEQUE...    48   0.072  1
(AC185737) Bos taurus clone RP42-285E22, WORKING DRAFT SEQUE...    48   0.072  1
(AC184008) Atelerix albiventris clone LB4-68O19, WORKING DRA...    48   0.072  1
(AC172179) Atelerix albiventris clone LB4-422E16, WORKING DR...    48   0.072  1
(AL049181) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    44   0.14   2
(EG640851) gmapov_0005o01.pDNRm13r.scf Gadus morhua ovary li...    32   0.80   2
(CR387927) Zebrafish DNA sequence from clone CH211-260P11 in...    36   1.1    2
(AB001684) Chlorella vulgaris C-27 chloroplast DNA, complete...    44   1.1    1
(AC152759) Bos taurus clone CH240-18H5, *** SEQUENCING IN PR...    44   1.1    1
(CU914186) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   1.1    1
(CU618319) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   1.1    1
(CU606882) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   1.1    1
(CT030141) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   1.1    1
(CT030037) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   1.1    1
(AL844509) Plasmodium falciparum chromosome 13.                    44   1.1    1
(AC173397) Bos taurus clone CH240-310D15, WORKING DRAFT SEQU...    44   1.1    1
(AC164246) Bos taurus clone CH240-134N18, *** SEQUENCING IN ...    44   1.1    1
(FL577243) cembMI0876 cDNA library from leaves of Gossypium ...    44   1.1    1
(AQ961185) LERFJ65TR LERA Arabidopsis thaliana genomic clone...    40   1.5    2
(AQ961184) LERFJ65TF LERA Arabidopsis thaliana genomic clone...    40   1.6    2
(ER419227) 1092963691611 Global-Ocean-Sampling_GS-35-01-01-1...    38   1.8    2
(AG465150) Mus musculus molossinus DNA, clone:MSMg01-354I18....    32   2.9    2
(AC113366) Homo sapiens chromosome 5 clone RP11-109F5, compl...    36   4.3    2
(AP004546) Lotus japonicus genomic DNA, chromosome 1, clone:...    42   4.4    1
(AL132979) Arabidopsis thaliana DNA chromosome 3, BAC clone ...    42   4.4    1
(AC159440) Trypanosoma brucei chromosome 3 clone RPCI93-2H15...    42   4.4    1
(AC093543) Trypanosoma brucei chromosome 3 clone RPCI93-5L5,...    42   4.4    1
(AC093605) Homo sapiens BAC clone RP11-583P24 from 4, comple...    42   4.4    1
(AC159602) Rhinolophus ferrumequinum clone VMRC7-211C13, WOR...    42   4.4    1
(AC158731) Rhinolophus ferrumequinum clone VMRC7-305K11, WOR...    42   4.4    1
(AC092950) Homo sapiens chromosome 3 clone RP11-520H6, WORKI...    42   4.4    1
(CR940347) Theileria annulata genomic DNA chromosome 1 part 1.     42   4.4    1
(AP008039) Lotus japonicus genomic DNA, chromosome 1, clone:...    42   4.4    1
(AC202277) Macaca mulatta clone CH250-232G16, WORKING DRAFT ...    42   4.4    1
(AC192895) Echinops telfairi clone CH238-310J9, WORKING DRAF...    42   4.4    1
(AC023537) Homo sapiens chromosome 4 clone RP11-394N5 map 4,...    42   4.4    1
(AC022988) Homo sapiens chromosome 4 clone RP11-637O11 map 4...    42   4.4    1
(AQ643340) RPCI93-DpnII-29K6.TV RPCI93-DpnII Trypanosoma bru...    42   4.4    1
(EK004294) 1093246000888 Global-Ocean-Sampling_GS-30-02-01-1...    42   4.4    1
(EJ848042) 1093017865307 Global-Ocean-Sampling_GS-30-02-01-1...    42   4.4    1
(AL477986) T. brucei sheared genomic DNA clone 190a11, forwa...    42   4.4    1
(AL458325) T. brucei sheared genomic DNA clone 66c12, forwar...    42   4.4    1
(DU902593) 418812 Tomato HindIII BAC Library Solanum lycoper...    42   4.4    1
(AG773633) Macaca fuscata fuscata DNA, clone: MSB2-250F18_R,...    42   4.4    1
(AG514673) Mus musculus molossinus DNA, clone:MSMg01-419J19....    42   4.4    1
(CE801620) tigr-gss-dog-17000317732645 Dog Library Canis lup...    42   4.4    1
(CX661834) V01011B07_559112 Fragaria vesca heat stressed see...    42   4.4    1
(AL358942) Human DNA sequence from clone RP1-159M24 on chrom...    36   4.9    2
(ET346384) S0272L08_T7 CHORI-214 Salmo salar genomic clone S...    36   6.8    2
(BV516637) qcr41h11.b1 Clint Pan troglodytes verus STS genom...    38   7.0    2
(AC099789) Homo sapiens chromosome 1 clone RP11-377K22, comp...    32   8.1    2
(AC168995) Muntiacus reevesi clone CH245-251O10, WORKING DRA...    32   8.1    2
(AC170041) Muntiacus muntjak vaginalis clone CH244-526J8, WO...    32   8.1    2
(AC005309) Arabidopsis thaliana chromosome 2 clone F17A22 ma...    30   8.3    2
(AB206577) Arabidopsis thaliana PCLL gene for putative trans...    40   8.5    2
(DD453933) Nucleic acid, amino acid encoding the nucleic aci...    40   8.5    2

>(BJ367109) Dictyostelium discoideum cDNA clone:ddc41l10, 5' end,
          single read.
          Length = 127

 Score = 79.8 bits (40), Expect = 2e-11
 Identities = 40/40 (100%)
 Strand = Plus / Plus


Query: 1  ataaatatacaaattaatacaaaaaagaaattgaatgacg 40
          ||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  ataaatatacaaattaatacaaaaaagaaattgaatgacg 40

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 83,824,869
Number of extensions: 7314775
Number of successful extensions: 2039697
Number of sequences better than 10.0: 60
Length of query: 136
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 114
Effective length of database: 93,199,600,587
Effective search space: 10624754466918
Effective search space used: 10624754466918
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)
protein update 2009. 7.11
Homology vs Protein 
Query= Contig-U14371-1 (Contig-U14371-1Q) /CSM_Contig/Contig-U14371-1Q.Seq.d
         (136 letters)

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

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

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

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 Sequences: 3236559
Number of Hits to DB: 91,378,097
Number of extensions: 920746
Number of successful extensions: 610
Number of sequences better than 10.0: 0
Number of HSP's gapped: 610
Number of HSP's successfully gapped: 0
Length of query: 45
Length of database: 1,051,180,864
Length adjustment: 19
Effective length of query: 26
Effective length of database: 989,686,243
Effective search space: 25731842318
Effective search space used: 25731842318
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 25 (14.2 bits)
PSORT 

 psg: 0.98  gvh: 0.50  alm: 0.34  top: 0.47  tms: 0.00  mit: 0.34  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: 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 

	 36.0 %: cytoplasmic
	 20.0 %: nuclear
	 16.0 %: extracellular, including cell wall
	 12.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: endoplasmic reticulum
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U14371-1 is cyt
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) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0