Contig-U14141-1
Contig ID Contig-U14141-1
Contig update 2002.12.18
Contig sequence
>Contig-U14141-1 (Contig-U14141-1Q) /CSM_Contig/Contig-U14141-1Q.Seq.d
NNNNNNNNNNAATCCNAAACCTGGNCCCCAATATTATCCCCNANCNACTT
TNCCNNTATTTGAATCCCCNAANGNTTTTGANAAATTTGANATNGANACC
NTGNTTTTCNTTTTTTATTTCNAACAAGGNANTTATCNACAANATCNAGC
AGNTAAANNATTAAANAAACAAGGNTGGAGNTNTNATAAAAAANATNTCN
CCTGGNTTANAANACATGAAGNACCNAAANAAATNCCNAANGAATTTGAA
CAAGGGACCTATGNTTATTTTGA

Gap no gap
Contig length 273
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 U14141
List of clone(s)

est1=AHO754Z,1,264
Translated Amino Acid sequence
XXXNPKPGPQYYPXXTXPXFESPXXFXKFXXXTXXFXFYFXQGXYXQXXAXKXLXKQGWX
XXKKXXXWXXXHEXPKXXPXEFEQGTYXYF


Translated Amino Acid sequence (All Frames)
Frame A:
xxxxsxtwxpilspxxfxxi*ipxxf*xi*xxxxxfxflfxtrxlstxssx*xikxtrxe
xx*kxxxlxxxt*xtxxnxxxi*trdlxlf*


Frame B:
XXXNPKPGPQYYPXXTXPXFESPXXFXKFXXXTXXFXFYFXQGXYXQXXAXKXLXKQGWX
XXKKXXXWXXXHEXPKXXPXEFEQGTYXYF


Frame C:
xxxixnlxpniipxxlxxylnpxxxlxnlxxxpxfsffisnkxxixxixqxxx*xnkxgx
xikxxspglxxmkxxxkxxxnlnkgpmxil


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U14141-1 (Contig-U14141-1Q)
/CSM_Contig/Contig-U14141-1Q.Seq.d
(273 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U14141-1 (Contig-U14141-1Q) /CSM_Contig/Conti... 218 2e-57
Contig-U13852-1 (Contig-U13852-1Q) /CSM_Contig/Conti... 157 7e-39
Contig-U12311-1 (Contig-U12311-1Q) /CSM_Contig/Conti... 28 4.5

>Contig-U14141-1 (Contig-U14141-1Q) /CSM_Contig/Contig-U14141-1Q.Seq.d
Length = 273

Score = 218 bits (110), Expect = 2e-57
Identities = 257/263 (97%)
Strand = Plus / Plus


Query: 11 aatccnaaacctggnccccaatattatccccnancnactttnccnntatttgaatccccn 70
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 11 aatccnaaacctggnccccaatattatccccnancnactttnccnntatttgaatccccn 70


Query: 71 aangnttttganaaatttganatnganaccntgnttttcnnnnnnnatttcnaacaaggn 130
|||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 71 aangnttttganaaatttganatnganaccntgnttttcnttttttatttcnaacaaggn 130


Query: 131 anttatcnacaanatcnagcagntaaannattaaanaaacaaggntggagntntnataaa 190
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 131 anttatcnacaanatcnagcagntaaannattaaanaaacaaggntggagntntnataaa 190


Query: 191 aaanatntcncctggnttanaanacatgaagnaccnaaanaaatnccnaangaatttgaa 250
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 191 aaanatntcncctggnttanaanacatgaagnaccnaaanaaatnccnaangaatttgaa 250


Query: 251 caagggacctatgnttattttga 273
|||||||||||||||||||||||
Sbjct: 251 caagggacctatgnttattttga 273


>Contig-U13852-1 (Contig-U13852-1Q) /CSM_Contig/Contig-U13852-1Q.Seq.d
Length = 1299

Score = 157 bits (79), Expect = 7e-39
Identities = 204/263 (77%)
Strand = Plus / Plus


Query: 11 aatccnaaacctggnccccaatattatccccnancnactttnccnntatttgaatccccn 70
||||| ||||||| || ||||||||||| | | | ||||| || |||||||||| ||
Sbjct: 942 aatccaaaacctgtaccacaatattatccacaatcaactttaccattatttgaatcacca 1001


Query: 71 aangnttttganaaatttganatnganaccntgnttttcnnnnnnnatttcnaacaaggn 130
|| | |||||| |||||||| || || ||| || ||||| ||||| |||||||
Sbjct: 1002 aacgtttttgagaaatttgatatcgataccttgtttttcattttctatttcaaacaagga 1061


Query: 131 anttatcnacaanatcnagcagntaaannattaaanaaacaaggntggagntntnataaa 190
| ||||| ||| ||| ||||| |||| |||||| |||||||| ||||| | | |||||
Sbjct: 1062 acttatcancaatatcaagcagctaaagaattaaagaaacaaggttggagatatcataaa 1121


Query: 191 aaanatntcncctggnttanaanacatgaagnaccnaaanaaatnccnaangaatttgaa 250
||| || || ||||| ||| || |||||||| ||| ||| |||| | || ||||| |||
Sbjct: 1122 aaatatctcacctggtttagaagacatgaagaaccaaaagaaatcacaaatgaattcgaa 1181


Query: 251 caagggacctatgnttattttga 273
||||| ||||||| |||||||||
Sbjct: 1182 caaggtacctatgtttattttga 1204


>Contig-U12311-1 (Contig-U12311-1Q) /CSM_Contig/Contig-U12311-1Q.Seq.d
Length = 1251

Score = 28.2 bits (14), Expect = 4.5
Identities = 14/14 (100%)
Strand = Plus / Plus


Query: 244 atttgaacaaggga 257
||||||||||||||
Sbjct: 428 atttgaacaaggga 441


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: 144
Number of Sequences: 6905
Number of extensions: 144
Number of successful extensions: 34
Number of sequences better than 10.0: 3
length of query: 273
length of database: 5,674,871
effective HSP length: 15
effective length of query: 258
effective length of database: 5,571,296
effective search space: 1437394368
effective search space used: 1437394368
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2008.12.18
Homology vs DNA
Query= Contig-U14141-1 (Contig-U14141-1Q) /CSM_Contig/Contig-U14141-1Q.Seq.d
(273 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

(BJ356541) Dictyostelium discoideum cDNA clone:dda60l13, 3' ... 254 1e-63 1
(AC115599) Dictyostelium discoideum chromosome 2 map 4229098... 190 2e-44 1
(BJ356031) Dictyostelium discoideum cDNA clone:dda59c05, 3' ... 147 2e-31 1
(AU053048) Dictyostelium discoideum slug cDNA, clone SLF577. 96 8e-16 1

>(BJ356541) Dictyostelium discoideum cDNA clone:dda60l13, 3' end,
single read.
Length = 264

Score = 254 bits (128), Expect = 1e-63
Identities = 263/263 (100%)
Strand = Plus / Minus


Query: 11 aatccnaaacctggnccccaatattatccccnancnactttnccnntatttgaatccccn 70
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 aatccnaaacctggnccccaatattatccccnancnactttnccnntatttgaatccccn 205


Query: 71 aangnttttganaaatttganatnganaccntgnttttcnttttttatttcnaacaaggn 130
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 aangnttttganaaatttganatnganaccntgnttttcnttttttatttcnaacaaggn 145


Query: 131 anttatcnacaanatcnagcagntaaannattaaanaaacaaggntggagntntnataaa 190
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 anttatcnacaanatcnagcagntaaannattaaanaaacaaggntggagntntnataaa 85


Query: 191 aaanatntcncctggnttanaanacatgaagnaccnaaanaaatnccnaangaatttgaa 250
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 84 aaanatntcncctggnttanaanacatgaagnaccnaaanaaatnccnaangaatttgaa 25


Query: 251 caagggacctatgnttattttga 273
|||||||||||||||||||||||
Sbjct: 24 caagggacctatgnttattttga 2

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 72,693,196
Number of extensions: 3645158
Number of successful extensions: 61097
Number of sequences better than 10.0: 4
Length of query: 273
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 250
Effective length of database: 93,106,754,628
Effective search space: 23276688657000
Effective search space used: 23276688657000
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 7.10
Homology vs Protein
Query= Contig-U14141-1 (Contig-U14141-1Q) /CSM_Contig/Contig-U14141-1Q.Seq.d
(273 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

AC115599_19(AC115599|pid:none) Dictyostelium discoideum chromoso... 105 6e-22
(O13870) RecName: Full=General negative regulator of transcripti... 72 8e-12
CR382131_272(CR382131|pid:none) Yarrowia lipolytica strain CLIB1... 70 2e-11
(O75175) RecName: Full=CCR4-NOT transcription complex subunit 3;... 69 7e-11
AB014591_1(AB014591|pid:none) Homo sapiens mRNA for KIAA0691 pro... 69 7e-11
BC166211_1(BC166211|pid:none) Xenopus tropicalis hypothetical pr... 69 7e-11
(Q8K0V4) RecName: Full=CCR4-NOT transcription complex subunit 3;... 69 7e-11
AM470429_4(AM470429|pid:none) Vitis vinifera contig VV78X191569.... 68 1e-10
AM920435_479(AM920435|pid:none) Penicillium chrysogenum Wisconsi... 67 3e-10
AE013599_79(AE013599|pid:none) Drosophila melanogaster chromosom... 66 4e-10
AC167711_23(AC167711|pid:none) Medicago truncatula chromosome 7 ... 65 6e-10
BC077869_1(BC077869|pid:none) Xenopus laevis MGC80612 protein, m... 65 1e-09
AB012246_18(AB012246|pid:none) Arabidopsis thaliana genomic DNA,... 65 1e-09
BX950195_3(BX950195|pid:none) Zebrafish DNA sequence from clone ... 64 1e-09
AK222056_1(AK222056|pid:none) Arabidopsis thaliana mRNA for hypo... 64 2e-09
BC081678_1(BC081678|pid:none) Danio rerio zgc:92813, mRNA (cDNA ... 63 3e-09
CU633455_102(CU633455|pid:none) Podospora anserina genomic DNA c... 62 5e-09
CU151838_1(CU151838|pid:none) Human DNA sequence from clone XXba... 58 9e-08
T19385(T19385) hypothetical protein C18D11.5 - Caenorhabditis el... 57 2e-07
BT036315_1(BT036315|pid:none) Zea mays full-length cDNA clone ZM... 52 8e-06
CR940352_65(CR940352|pid:none) Theileria annulata strain Ankara ... 52 8e-06
AC138001_12(AC138001|pid:none) Oryza sativa chromosome 3 BAC OSJ... 52 8e-06
CU151838_2(CU151838|pid:none) Human DNA sequence from clone XXba... 47 3e-04
AC105379_34(AC105379|pid:none) Trypanosoma brucei chromosome 3 c... 43 0.004
CT005264_191(CT005264|pid:none) Leishmania major strain Friedlin... 43 0.004
CR954216_124(CR954216|pid:none) Ostreococcus tauri strain OTTH05... 42 0.005
AC138001_17(AC138001|pid:none) Oryza sativa chromosome 3 BAC OSJ... 37 0.21
AY391415_1(AY391415|pid:none) Danio rerio CCR4-NOT transcription... 35 0.81
BX950195_2(BX950195|pid:none) Zebrafish DNA sequence from clone ... 35 1.1
AE016817_37(AE016817|pid:none) Ashbya gossypii (= Eremothecium g... 33 2.4
CU928170_498(CU928170|pid:none) Kluyveromyces thermotolerans str... 33 2.4
CR380950_54(CR380950|pid:none) Candida glabrata strain CBS138 ch... 33 2.4
CP000586_26(CP000586|pid:none) Ostreococcus lucimarinus CCE9901 ... 33 3.1
(Q12514) RecName: Full=General negative regulator of transcripti... 33 3.1
AF295433_1(AF295433|pid:none) Arabidopsis thaliana VIP2 protein ... 33 4.0
AP008209_2548(AP008209|pid:none) Oryza sativa (japonica cultivar... 33 4.0
CR954206_36(CR954206|pid:none) Ostreococcus tauri strain OTTH059... 32 6.9
AC144343_13(AC144343|pid:none) Medicago truncatula clone mth2-12... 32 6.9

>AC115599_19(AC115599|pid:none) Dictyostelium discoideum chromosome 2
map 4229098-4354721 strain AX4, complete sequence.
Length = 1015

Score = 105 bits (261), Expect = 6e-22
Identities = 50/87 (57%), Positives = 50/87 (57%)
Frame = +2

Query: 11 NPKPGPQYYPXXTXPXFESPXXFXKFXXXTXXFXFYFXQGXYXQXXAXKXLXKQGWXXXK 190
NPKP PQYYP T P FESP F KF T F FYF QG Y Q A K L KQGW K
Sbjct: 746 NPKPVPQYYPQSTLPLFESPNVFEKFDIDTLFFIFYFKQGTYQQYQAAKELKKQGWRYHK 805

Query: 191 KXXXWXXXHEXPKXXPXEFEQGTYXYF 271
K W HE PK EFEQGTY YF
Sbjct: 806 KYLTWFRRHEEPKEITNEFEQGTYVYF 832

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: 174,139,790
Number of extensions: 8440446
Number of successful extensions: 491
Number of sequences better than 10.0: 38
Number of HSP's gapped: 491
Number of HSP's successfully gapped: 38
Length of query: 91
Length of database: 1,051,180,864
Length adjustment: 60
Effective length of query: 31
Effective length of database: 856,987,324
Effective search space: 26566607044
Effective search space used: 26566607044
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: 27 (15.0 bits)

PSORT

psg: 0.80 gvh: 0.54 alm: 0.57 top: 0.53 tms: 0.00 mit: 0.26 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
24.0 %: nuclear
16.0 %: cytoskeletal
16.0 %: mitochondrial
4.0 %: vacuolar
4.0 %: endoplasmic reticulum

>> prediction for Contig-U14141-1 is cyt

VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 1
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