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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
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Contig-U07012-1
Contig ID Contig-U07012-1
Contig update 2001. 8.30
Contig sequence 
>Contig-U07012-1 (Contig-U07012-1Q) /CSM_Contig/Contig-U07012-1Q.Seq.d
AAAAATAATAATGCCATTAATTGTATTAAGTGGACCACCATGTAGTGGTA
AAACAACAAGAGCAAAAGAATTATATGAACATTTTACAAATCTCGGTAAA
AAAGTAAAAAAGTAAAAAAGTAAAAAAAAA
Gap no gap
Contig length 130
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 5760852
End point 5760750
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U07012
List of clone(s) 

est1=VSJ483F,1,131
Translated Amino Acid sequence 
KIIMPLIVLSGPPCSGKTTRAKELYEHFTNLGKKVKK*kskkk
Translated Amino Acid sequence (All Frames) 
Frame A:
knnnaincikwttm*w*nnkskrii*tfyksr*kskkvkk*kk


Frame B:
KIIMPLIVLSGPPCSGKTTRAKELYEHFTNLGKKVKK*kskkk


Frame C:
k**ch*ly*vdhhvvvkqqeqknymnilqisvkk*kskkvkk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U07012-1 (Contig-U07012-1Q)
/CSM_Contig/Contig-U07012-1Q.Seq.d
         (130 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U07012-1 (Contig-U07012-1Q) /CSM_Contig/Conti...   190  2e-49
Contig-U12300-1 (Contig-U12300-1Q) /CSM_Contig/Conti...    40  5e-04
Contig-U11311-1 (Contig-U11311-1Q) /CSM_Contig/Conti...    38  0.002
Contig-U14517-1 (Contig-U14517-1Q) /CSM_Contig/Conti...    34  0.033
Contig-U13094-1 (Contig-U13094-1Q) /CSM_Contig/Conti...    34  0.033
Contig-U11427-1 (Contig-U11427-1Q) /CSM_Contig/Conti...    34  0.033
Contig-U12264-1 (Contig-U12264-1Q) /CSM_Contig/Conti...    32  0.13
Contig-U11587-1 (Contig-U11587-1Q) /CSM_Contig/Conti...    32  0.13
Contig-U11537-1 (Contig-U11537-1Q) /CSM_Contig/Conti...    32  0.13

>Contig-U07012-1 (Contig-U07012-1Q) /CSM_Contig/Contig-U07012-1Q.Seq.d
          Length = 130

 Score =  190 bits (96), Expect = 2e-49
 Identities = 96/96 (100%)
 Strand = Plus / Plus

                                                                      
Query: 1  aaaaataataatgccattaattgtattaagtggaccaccatgtagtggtaaaacaacaag 60
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  aaaaataataatgccattaattgtattaagtggaccaccatgtagtggtaaaacaacaag 60

                                              
Query: 61 agcaaaagaattatatgaacattttacaaatctcgg 96
          ||||||||||||||||||||||||||||||||||||
Sbjct: 61 agcaaaagaattatatgaacattttacaaatctcgg 96


>Contig-U12300-1 (Contig-U12300-1Q) /CSM_Contig/Contig-U12300-1Q.Seq.d
          Length = 3886

 Score = 40.1 bits (20), Expect = 5e-04
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                                
Query: 49   taaaacaacaagagcaaaag 68
            ||||||||||||||||||||
Sbjct: 3863 taaaacaacaagagcaaaag 3882


>Contig-U11311-1 (Contig-U11311-1Q) /CSM_Contig/Contig-U11311-1Q.Seq.d
          Length = 1408

 Score = 38.2 bits (19), Expect = 0.002
 Identities = 25/27 (92%)
 Strand = Plus / Plus

                                      
Query: 65  aaagaattatatgaacattttacaaat 91
           |||||||  ||||||||||||||||||
Sbjct: 311 aaagaatattatgaacattttacaaat 337


  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: 3424
Number of Sequences: 6905
Number of extensions: 3424
Number of successful extensions: 1232
Number of sequences better than 10.0: 188
length of query: 130
length of database: 5,674,871
effective HSP length: 14
effective length of query: 116
effective length of database: 5,578,201
effective search space: 647071316
effective search space used: 647071316
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 2008.11.11
Homology vs DNA 
Query= Contig-U07012-1 (Contig-U07012-1Q) /CSM_Contig/Contig-U07012-1Q.Seq.d
         (130 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

(AC115598) Dictyostelium discoideum chromosome 2 map 581427-...   192   2e-45  1
(AU269992) Dictyostelium discoideum vegetative cDNA clone:VS...   192   2e-45  1
(AU269993) Dictyostelium discoideum vegetative cDNA clone:VS...   159   3e-35  1
(FK814934) PRAG-aac86e11.g1 Sand_fly_EST_Normalized Phleboto...    48   0.068  1
(AL953847) Zebrafish DNA sequence from clone CH211-255A4 in ...    38   0.25   2
(CC123131) NDL.46C20.SP6 Notre Dame Liverpool Aedes aegypti ...    46   0.27   1
(AC154213) Mus musculus BAC clone RP24-120I12 from chromosom...    44   1.1    1
(AC132931) Mus musculus clone RP24-77C19, WORKING DRAFT SEQU...    44   1.1    1
(CK876104) SGP137366 Atlantic salmon Eye cDNA library Salmo ...    44   1.1    1
(CB502030) ssalra019091 head Salmo salar cDNA, mRNA sequence.      44   1.1    1
(CU638691) S.lycopersicum DNA sequence *** SEQUENCING IN PRO...    38   3.1    2
(AC194642) Zea mays chromosome 6 clone ZMMBBb-398G14; ZMMBBb...    42   3.7    2
(AC095204) Rattus norvegicus clone CH230-9J19, *** SEQUENCIN...    38   3.8    3
(CU655970) Zebrafish DNA sequence from clone CH73-337H16 in ...    42   4.2    1
(BX640521) Zebrafish DNA sequence from clone DKEY-125I10 in ...    42   4.2    1
(BX324137) Zebrafish DNA sequence from clone CH211-42A2 in l...    42   4.2    1
(BX001057) Zebrafish DNA sequence from clone CH211-89G13 in ...    42   4.2    1
(AM439248) Vitis vinifera contig VV79X007207.11, whole genom...    42   4.2    1
(AF325712) Drosophila melanogaster beaten path Ic mRNA, comp...    42   4.2    1
(AE014134) Drosophila melanogaster chromosome 2L, complete s...    42   4.2    1
(AC092400) Drosophila melanogaster, chromosome 2L, region 36...    42   4.2    1
(AC092395) Drosophila melanogaster, chromosome 2L, region 36...    42   4.2    1
(AL132778) Human chromosome 14 DNA sequence BAC C-2568P8 of ...    42   4.2    1
(AC160179) Bos taurus clone CH240-88M15, WORKING DRAFT SEQUE...    42   4.2    1
(AC135529) Rattus norvegicus clone CH230-368D20, WORKING DRA...    42   4.2    1
(CU856525) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   4.2    1
(AC221851) Bos taurus clone CH240-380L21, WORKING DRAFT SEQU...    42   4.2    1
(AC187541) Saimiri boliviensis boliviensis clone CH254-230C7...    42   4.2    1
(AC165807) Bos taurus clone CH240-158B24, WORKING DRAFT SEQU...    42   4.2    1
(AC017411) Drosophila melanogaster, *** SEQUENCING IN PROGRE...    42   4.2    1
(ER309887) 1092343784388 Global-Ocean-Sampling_GS-34-01-01-1...    42   4.2    1
(EK278101) 1095462284521 Global-Ocean-Sampling_GS-31-01-01-1...    42   4.2    1
(EK175881) 1095458097141 Global-Ocean-Sampling_GS-31-01-01-1...    42   4.2    1
(EK149764) 1095456042451 Global-Ocean-Sampling_GS-31-01-01-1...    42   4.2    1
(AM641220) Entamoeba dispar GSS, clone dispar81a05.q1k.            42   4.2    1
(EJ597289) 1092961099987 Global-Ocean-Sampling_GS-29-01-01-1...    42   4.2    1
(EJ225183) 1092351400527 Global-Ocean-Sampling_GS-27-01-01-1...    42   4.2    1
(CP000764) Bacillus cereus subsp. cytotoxis NVH 391-98, comp...    42   4.2    1
(AC123261) Rattus norvegicus clone CH230-285N23, *** SEQUENC...    36   7.8    3
(AC162819) Bos taurus clone CH240-126C8, WORKING DRAFT SEQUE...    36   8.6    3
(BU495493) PfESToab73f04.y1 Plasmodium falciparum 3D7 asexua...    36   8.6    2
(AC200810) Triticum aestivum clone TAACSPALLhA_0961H13, *** ...    36   9.8    3

>(AC115598) Dictyostelium discoideum chromosome 2 map 581427-735498 strain
              AX4, complete sequence.
          Length = 154071

 Score =  192 bits (97), Expect = 2e-45
 Identities = 97/97 (100%)
 Strand = Plus / Plus


Query: 1      aaaaataataatgccattaattgtattaagtggaccaccatgtagtggtaaaacaacaag 60
              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 140760 aaaaataataatgccattaattgtattaagtggaccaccatgtagtggtaaaacaacaag 140819


Query: 61     agcaaaagaattatatgaacattttacaaatctcggt 97
              |||||||||||||||||||||||||||||||||||||
Sbjct: 140820 agcaaaagaattatatgaacattttacaaatctcggt 140856

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 134,715,638
Number of extensions: 8987858
Number of successful extensions: 2765145
Number of sequences better than 10.0: 42
Length of query: 130
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 108
Effective length of database: 93,199,600,587
Effective search space: 10065556863396
Effective search space used: 10065556863396
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)
protein update 2009. 6.23
Homology vs Protein 
Query= Contig-U07012-1 (Contig-U07012-1Q) /CSM_Contig/Contig-U07012-1Q.Seq.d
         (130 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BC122265_1(BC122265|pid:none) Danio rerio zgc:153393, mRNA (cDNA...    40   0.025
(Q0P457) RecName: Full=Protein KTI12 homolog;  &AL935332_4(AL935...    40   0.025
(Q4KLF3) RecName: Full=Protein KTI12 homolog;  &BC099247_1(BC099...    39   0.043
BT047277_1(BT047277|pid:none) Salmo salar clone ssal-eve-557-001...    38   0.095
BT081835_1(BT081835|pid:none) Rana catesbeiana clone rcat-evr-53...    38   0.12
AY737039_1(AY737039|pid:none) Oreochromis mossambicus clone Cont...    35   0.62
EU016612_38(EU016612|pid:none) Uncultured marine microorganism H...    35   0.81
AE017351_204(AE017351|pid:none) Cryptococcus neoformans var. neo...    34   1.4
(P34253) RecName: Full=Protein KTI12; AltName: Full=Killer toxin...    34   1.4
X71133_1(X71133|pid:none) S.cerevisiae HAP4, AAT1, GFA1, LAP4 an...    34   1.4
(Q9P7V4) RecName: Full=Protein kti12;  &AL136538_2(AL136538|pid:...    34   1.4
(A3DND3) RecName: Full=Cytidylate kinase;          Short=CK;    ...    34   1.8
FN392319_1436(FN392319|pid:none) Pichia pastoris GS115 chromosom...    34   1.8
AM502248_215(AM502248|pid:none) Leishmania infantum chromosome 30.     34   1.8
BX276128_9(BX276128|pid:none) Zebrafish DNA sequence from clone ...    34   1.8
CP000903_2688(CP000903|pid:none) Bacillus weihenstephanensis KBA...    33   2.3
AM920428_1556(AM920428|pid:none) Penicillium chrysogenum Wiscons...    33   3.1
AM270200_17(AM270200|pid:none) Aspergillus niger contig An09c011...    33   4.0
CR382131_70(CR382131|pid:none) Yarrowia lipolytica strain CLIB12...    33   4.0
CP001283_2873(CP001283|pid:none) Bacillus cereus AH820, complete...    32   5.2
CP001407_2871(CP001407|pid:none) Bacillus cereus 03BB102, comple...    32   5.2
AE013599_2863(AE013599|pid:none) Drosophila melanogaster chromos...    32   5.2
CP000485_2510(CP000485|pid:none) Bacillus thuringiensis str. Al ...    32   5.2
CT005267_198(CT005267|pid:none) Leishmania major strain Friedlin...    32   5.2
AE016879_2728(AE016879|pid:none) Bacillus anthracis str. Ames, c...    32   5.2
CP001186_2891(CP001186|pid:none) Bacillus cereus G9842, complete...    32   5.2
AE017355_2668(AE017355|pid:none) Bacillus thuringiensis serovar ...    32   5.2
AE013599_2864(AE013599|pid:none) Drosophila melanogaster chromos...    32   5.2
AC084047_53(AC084047|pid:none) Trypanosoma brucei chromosome 6 c...    32   5.2
CP000267_3194(CP000267|pid:none) Rhodoferax ferrireducens T118, ...    32   6.8
(P21074) RecName: Full=Guanylate kinase homolog;                       32   6.8
CP001229_249(CP001229|pid:none) Sulfurihydrogenibium azorense Az...    32   6.8
U97010_4(U97010|pid:none) Caenorhabditis elegans cosmid W08A12, ...    32   6.8
C89008(C89008)protein W08A12.1 [imported] - Caenorhabditis elegans     32   6.8
CP000882_111(CP000882|pid:none) Hemiselmis andersenii chromosome...    32   6.8
U97010_6(U97010|pid:none) Caenorhabditis elegans cosmid W08A12, ...    32   6.8

>BC122265_1(BC122265|pid:none) Danio rerio zgc:153393, mRNA (cDNA
          clone MGC:153393 IMAGE:8123301), complete cds.
          &BC164624_1(BC164624|pid:none)
          Length = 275

 Score = 40.0 bits (92), Expect = 0.025
 Identities = 17/26 (65%), Positives = 22/26 (84%)
 Frame = +2

Query: 11 MPLIVLSGPPCSGKTTRAKELYEHFT 88
          MPLI++ G PCSGKT RA+EL ++FT
Sbjct: 1  MPLILMCGYPCSGKTRRAQELRDYFT 26

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: 3204285
Number of Hits to DB: 129,922,034
Number of extensions: 1204301
Number of successful extensions: 13974
Number of sequences better than 10.0: 36
Number of HSP's gapped: 13974
Number of HSP's successfully gapped: 36
Length of query: 43
Length of database: 1,040,966,779
Length adjustment: 17
Effective length of query: 26
Effective length of database: 986,493,934
Effective search space: 25648842284
Effective search space used: 25648842284
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: 0.97  gvh: 0.56  alm: 0.44  top: 0.50  tms: 0.00  mit: 0.34  mip: 0.05
 nuc: 0.12  erl: 0.00  erm: 0.60  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 

	 32.0 %: nuclear
	 24.0 %: mitochondrial
	 20.0 %: cytoplasmic
	  8.0 %: extracellular, including cell wall
	  8.0 %: endoplasmic reticulum
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar

>> prediction for Contig-U07012-1 is nuc
VS (DIR, S) 1
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) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0