Contig-U14412-1
Contig ID Contig-U14412-1
Contig update 2002.12.18
Contig sequence
>Contig-U14412-1 (Contig-U14412-1Q) /CSM_Contig/Contig-U14412-1Q.Seq.d
NNNNNNNNNNCNNAACCCCCAAANTGGNTTTTTTTTTTTTTTNGGTATTA
TTAAAAAAAAAAAAACAAAAAAATTGTTTCATTTGAAACAAATAAAATAA
TAAACTAACTT

Gap no gap
Contig length 111
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 U14412
List of clone(s)

est1=CHN231Z,1,102
Translated Amino Acid sequence
XXXXNPQXGFFFFXGIIKKKKTKKLFHLKQIK**tn


Translated Amino Acid sequence (All Frames)
Frame A:
xxxxxppxwxffffxyy*kkknkkivsfetnkiin*l


Frame B:
XXXXNPQXGFFFFXGIIKKKKTKKLFHLKQIK**tn


Frame C:
xxxxtpkxxffffxvllkkkkqkncfi*nk*nnklt


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U14412-1 (Contig-U14412-1Q)
/CSM_Contig/Contig-U14412-1Q.Seq.d
(111 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U14412-1 (Contig-U14412-1Q) /CSM_Contig/Conti... 76 8e-15
Contig-U13298-1 (Contig-U13298-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U11288-1 (Contig-U11288-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U09432-1 (Contig-U09432-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U09366-1 (Contig-U09366-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U06990-1 (Contig-U06990-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U06619-1 (Contig-U06619-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U02608-1 (Contig-U02608-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U00070-1 (Contig-U00070-1Q) /CSM_Contig/Conti... 36 0.007
Contig-U12593-1 (Contig-U12593-1Q) /CSM_Contig/Conti... 34 0.028

>Contig-U14412-1 (Contig-U14412-1Q) /CSM_Contig/Contig-U14412-1Q.Seq.d
Length = 111

Score = 75.8 bits (38), Expect = 8e-15
Identities = 38/38 (100%)
Strand = Plus / Plus


Query: 74 ttgtttcatttgaaacaaataaaataataaactaactt 111
||||||||||||||||||||||||||||||||||||||
Sbjct: 74 ttgtttcatttgaaacaaataaaataataaactaactt 111


>Contig-U13298-1 (Contig-U13298-1Q) /CSM_Contig/Contig-U13298-1Q.Seq.d
Length = 1536

Score = 36.2 bits (18), Expect = 0.007
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 87 aacaaataaaataataaa 104
||||||||||||||||||
Sbjct: 185 aacaaataaaataataaa 202


>Contig-U11288-1 (Contig-U11288-1Q) /CSM_Contig/Contig-U11288-1Q.Seq.d
Length = 3111

Score = 36.2 bits (18), Expect = 0.007
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 86 aaacaaataaaataataa 103
||||||||||||||||||
Sbjct: 3054 aaacaaataaaataataa 3071


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: 4369
Number of Sequences: 6905
Number of extensions: 4369
Number of successful extensions: 1042
Number of sequences better than 10.0: 434
length of query: 111
length of database: 5,674,871
effective HSP length: 14
effective length of query: 97
effective length of database: 5,578,201
effective search space: 541085497
effective search space used: 541085497
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-U14412-1 (Contig-U14412-1Q) /CSM_Contig/Contig-U14412-1Q.Seq.d
(111 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

(BJ384144) Dictyostelium discoideum cDNA clone:ddc48m08, 3' ... 76 2e-10 1
(EK416657) 1095515468060 Global-Ocean-Sampling_GS-31-01-01-1... 48 0.056 1
(CZ943535) 314564 Tomato EcoRI BAC Library Solanum lycopersi... 48 0.056 1
(EA333177) Sequence 5669 from patent US 7306913. 44 0.88 1
(U62631) Human B-cell receptor CD22-B isoform and alternativ... 44 0.88 1
(S61408) CD22 [human, Genomic, 3650 nt, segment 1 of 15]. 44 0.88 1
(AC002132) Human DNA from chromosome 19 cosmid F24108 contai... 44 0.88 1
(AC132780) Rattus norvegicus clone CH230-74L18, WORKING DRAF... 44 0.88 1
(AC126127) Rattus norvegicus clone CH230-117D20, WORKING DRA... 44 0.88 1
(AC179534) Strongylocentrotus purpuratus clone R3-1035A8, WO... 44 0.88 1
(FH401158) CHO_OF4827xo15f1.ab1 CHO_OF4 Nicotiana tabacum ge... 44 0.88 1
(EK035959) 1092959452821 Global-Ocean-Sampling_GS-31-01-01-1... 44 0.88 1
(EK027634) 1092955381975 Global-Ocean-Sampling_GS-31-01-01-1... 44 0.88 1
(DX573750) Phaseolus-Bat-7_02_F05.F Phaseolus-Bat-7 Phaseolu... 44 0.88 1
(DY322773) OB_EEa03E05.f OB_EEa Ocimum basilicum cDNA clone ... 44 0.88 1
(DW498149) GH_TMIRS_023_B10_F Cotton Normalized Library dT p... 44 0.88 1
(AM180355) Clostridium difficile 630 complete genome. 44 0.88 1
(AF288092) Naegleria gruberi mitochondrial DNA, complete gen... 40 0.91 2
(BX004851) Mouse DNA sequence from clone RP23-451H12 on chro... 38 1.7 2
(AC160263) Bos taurus clone CH240-87E23, WORKING DRAFT SEQUE... 40 2.7 2
(AC182938) Bos taurus clone CH240-307F9, WORKING DRAFT SEQUE... 40 2.9 2
(CU570993) Zebrafish DNA sequence from clone DKEYP-88C1 in l... 42 3.5 1
(CT955987) Zebrafish DNA sequence from clone DKEYP-87D7 in l... 42 3.5 1
(AL158281) H.sapiens STS from flow-sorted chromosome X rando... 42 3.5 1
(AL683877) Mouse DNA sequence from clone RP23-120P2 on chrom... 42 3.5 1
(AC160765) Mus musculus BAC clone RP23-26O24 from chromosome... 42 3.5 1
(AC192974) Pan troglodytes BAC clone CH251-628O2 from chromo... 42 3.5 1
(AC192483) Pan troglodytes BAC clone CH251-305A24 from chrom... 42 3.5 1
(AC147273) Pan troglodytes BAC clone RP43-116B18 from chromo... 42 3.5 1
(AM472706) Vitis vinifera contig VV78X005065.4, whole genome... 42 3.5 1
(AM464543) Vitis vinifera contig VV78X112680.5, whole genome... 42 3.5 1
(AM440415) Vitis vinifera, whole genome shotgun sequence, co... 42 3.5 1
(AC209222) Populus trichocarpa clone POP017-E23, complete se... 42 3.5 1
(DD159156) NOVEL COMPOSITIONS AND METHODS FOR CANCER. 42 3.5 1
(CS374577) Sequence 680 from Patent WO2006034879. 42 3.5 1
(CS374305) Sequence 408 from Patent WO2006034879. 42 3.5 1
(AX695614) Sequence 1241 from Patent WO03008583. 42 3.5 1
(AX349166) Sequence 92 from Patent WO0202808. 42 3.5 1
(AX347445) Sequence 92 from Patent WO0200705. 42 3.5 1
(AX345293) Sequence 364 from Patent WO0200928. 42 3.5 1
(AC006614) Caenorhabditis elegans cosmid C34H3, complete seq... 42 3.5 1
(AL133274) Human DNA sequence from clone RP13-94P8 on chromo... 42 3.5 1
(AC012067) Homo sapiens BAC clone RP11-192N14 from Y, comple... 42 3.5 1
(AC004029) Human BAC clone CTB-35E18 from 7q31, complete seq... 42 3.5 1
(AC124035) Rattus norvegicus clone CH230-379N2, *** SEQUENCI... 42 3.5 1
(AC117795) Mus musculus chromosome 13 clone RP24-553A6 map 1... 42 3.5 1
(AC113648) Rattus norvegicus clone CH230-359I16, *** SEQUENC... 42 3.5 1
(AC111965) Rattus norvegicus clone CH230-185I9, WORKING DRAF... 42 3.5 1
(AC098987) Rattus norvegicus clone CH230-53F13, WORKING DRAF... 42 3.5 1
(CU467940) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 42 3.5 1
(CT573164) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 42 3.5 1
(AC203748) Zea mays chromosome 9 clone CH201-333H5; ZMMBBc03... 42 3.5 1
(AC197514) Pan troglodytes chromosome 7 clone CH251-566F6, W... 42 3.5 1
(AC164379) Bos taurus clone CH240-150I18, *** SEQUENCING IN ... 42 3.5 1
(AK156750) Mus musculus activated spleen cDNA, RIKEN full-le... 42 3.5 1
(FI041057) CHO_OF6465xn19f1.ab1 CHO_OF6 Nicotiana tabacum ge... 42 3.5 1
(FH539753) CHO_OF4769xn01r1.ab1 CHO_OF4 Nicotiana tabacum ge... 42 3.5 1
(FH514896) CHO_OF4710xd24f1.ab1 CHO_OF4 Nicotiana tabacum ge... 42 3.5 1
(FH258661) CHO_OF3365xm21r1.ab1 CHO_OF3 Nicotiana tabacum ge... 42 3.5 1
(ET840595) CHO_OF893xe03f1.ab1 CHO_OF Nicotiana tabacum geno... 42 3.5 1
(EK585979) 1095522075774 Global-Ocean-Sampling_GS-32-01-01-1... 42 3.5 1
(EJ913313) 1093018547620 Global-Ocean-Sampling_GS-30-02-01-1... 42 3.5 1
(EJ871987) 1093018351300 Global-Ocean-Sampling_GS-30-02-01-1... 42 3.5 1
(DU761634) ASNG3799.g2 HF200_10-06-02 uncultured marine micr... 42 3.5 1
(DH110056) Oryzias latipes Fosmid clone:GOLWFno367_p05, forw... 42 3.5 1
(DH101773) Oryzias latipes Fosmid clone:GOLWFno348_h15, reve... 42 3.5 1
(DE888076) Macropus eugenii DNA, BAC clone: MEB1-063J18_R, 3... 42 3.5 1
(DE127956) Oryzias latipes DNA, forward end of BAC clone: Md... 42 3.5 1
(CL906701) OA_ABa0005F01.r OA_ABa Oryza australiensis genomi... 42 3.5 1
(EC760305) PSE00007419 rw_mgpallid Polysphondylium pallidum ... 42 3.5 1
(EC745169) PSE00000395 rw_mgpallid Polysphondylium pallidum ... 42 3.5 1
(CB591981) AGENCOURT_13044117 NICHD_XGC_Te1 Xenopus laevis c... 42 3.5 1
(CB281741) ru56h06.y1 Heterodera glycines J4 Heterodera glyc... 42 3.5 1
(CB278852) ru29c10.y1 Heterodera glycines J4 Heterodera glyc... 42 3.5 1
(CB199424) AGENCOURT_11211380 NICHD_XGC_Tad2 Xenopus laevis ... 42 3.5 1
(BQ505819) EST613234 Generation of a set of potato cDNA clon... 42 3.5 1
(BG844590) 1024007A06.x1 C. reinhardtii CC-1690, normalized,... 42 3.5 1
(BG594555) EST493233 cSTS Solanum tuberosum cDNA clone cSTS7... 42 3.5 1
(BF670242) 602121614F1 NIH_MGC_56 Homo sapiens cDNA clone IM... 42 3.5 1
(BF014047) ro16e12.y1 Heterodera glycines J2 SL1 Topo1 Kloek... 42 3.5 1
(BF013596) ro09g06.y1 Heterodera glycines J2 SL1 Topo1 Kloek... 42 3.5 1
(CP000123) Mycoplasma capricolum subsp. capricolum ATCC 2734... 42 3.5 1
(CP000084) Candidatus Pelagibacter ubique HTCC1062, complete... 42 3.5 1
(BX293980) Mycoplasma mycoides subsp. mycoides SC str. PG1, ... 42 3.5 1
(AC097724) Homo sapiens BAC clone RP11-713D19 from 2, comple... 40 5.8 2
(AC180045) Strongylocentrotus purpuratus clone R3-25D13, WOR... 30 6.3 2
(AC176880) Strongylocentrotus purpuratus clone R3-1110D12, W... 30 6.5 2
(AP002742) Homo sapiens genomic DNA, chromosome 4q22-q24, cl... 38 8.2 2
(AC016078) Homo sapiens clone RP11-23K3, WORKING DRAFT SEQUE... 38 9.2 2
(AC022076) Homo sapiens chromosome 3 clone RP11-34L7, WORKIN... 40 9.5 2

>(BJ384144) Dictyostelium discoideum cDNA clone:ddc48m08, 3' end,
single read.
Length = 102

Score = 75.8 bits (38), Expect = 2e-10
Identities = 38/38 (100%)
Strand = Plus / Minus


Query: 74 ttgtttcatttgaaacaaataaaataataaactaactt 111
||||||||||||||||||||||||||||||||||||||
Sbjct: 39 ttgtttcatttgaaacaaataaaataataaactaactt 2

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 86,885,106
Number of extensions: 9302257
Number of successful extensions: 2468129
Number of sequences better than 10.0: 90
Length of query: 111
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 89
Effective length of database: 93,199,600,587
Effective search space: 8294764452243
Effective search space used: 8294764452243
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)

protein update 2009. 7.11
Homology vs Protein
Query= Contig-U14412-1 (Contig-U14412-1Q) /CSM_Contig/Contig-U14412-1Q.Seq.d
(111 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: 46,062,563
Number of extensions: 808249
Number of sequences better than 10.0: 0
Number of HSP's gapped: 0
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 24 (13.9 bits)

PSORT

psg: 0.98 gvh: 0.23 alm: 0.59 top: 1.03 tms: 0.00 mit: 0.29 mip: 0.00
nuc: 0.16 erl: 0.00 erm: 0.20 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

48.0 %: nuclear
28.0 %: mitochondrial
16.0 %: cytoplasmic
4.0 %: cytoskeletal
4.0 %: plasma membrane

>> prediction for Contig-U14412-1 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) 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