Contig-U05408-1
Contig ID Contig-U05408-1
Contig update 2001. 8.29
Contig sequence
>Contig-U05408-1 (Contig-U05408-1Q) /CSM_Contig/Contig-U05408-1Q.Seq.d
AATATTAAAAAAAAAAAAAAAAAAAAATTAAAAATTGCAACGATCAAAGT
TAATTTTTAAAAGTTTGGATGTAAACTGATTGATTTGTTTTTTTCATTTT
AATTAACTTTTTTTAATTTTAGTATAATGCTTTTTATTCCACAAAGAGAC
ACTTCTTTTTAAAATTATAAAAAAAATGCGTATTTTTACCCAGAGTGGAG
AAAACAGATAAAAAGCTGATATCACCAAAAATTGGTAGTTCTATTTCTTA
ATACTATATATATTTTTGGAAAACAAGTATAAATTGCCAGAATAAACATC
CAATAAAATTAAATTTTTAATAAAATAATTTTTTTTTTAAAAAATAAATC
ATTAAAAAAATAATAATATATTTTTTAAACACTCTTTTAAATTTATTTAT
TTTTAATACAAGTGTTAAGTAATAGTAATTTTATTGAAAAATAAAAATAA
TCTATAGTTTTAAAATAAAAATAAATAAAAAAATAAATAATTTTTTTTTT
TTTATTATAGATTAGTGCAGTTTGAATTAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAA

Gap no gap
Contig length 577
Chromosome number (1..6, M) 3
Chromosome length 6358359
Start point 799112
End point 798529
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U05408
List of clone(s)

est1=SSI115E,1,578
Translated Amino Acid sequence
ilkkkkkkn*klqrsklifksldvn*licffhfn*lflilv*cflfhketllfkiikkmr
iftqsgenr*kaditknw*fyflilyiflenkyklpe*tsnkikflik*fff*kinh*kn
nniffkhsfkfiyf*ykc*vivillknknnl*f*nknk*knk*FFFFYYRLVQFELKKKK
KKKKKKKKKKKK


Translated Amino Acid sequence (All Frames)
Frame A:
nikkkkkkklkiatikvnf*kfgcklidlffsf*ltffnfsimlfipqrdtsf*nykkna
yfypewrkqiks*yhqklvvlflntiyifgkqv*iariniq*n*ifnkiifflknkslkk
**yif*tlf*iylfliqvlsnsnfiek*k*sivlk*k*ikk*iifffll*isav*ikkkk
kkkkkkkkkkkk


Frame B:
ilkkkkkkn*klqrsklifksldvn*licffhfn*lflilv*cflfhketllfkiikkmr
iftqsgenr*kaditknw*fyflilyiflenkyklpe*tsnkikflik*fff*kinh*kn
nniffkhsfkfiyf*ykc*vivillknknnl*f*nknk*knk*FFFFYYRLVQFELKKKK
KKKKKKKKKKKK


Frame C:
y*kkkkkkikncndqs*flkvwm*td*fvffilinff*f*ynafystkrhfflkl*kkcv
flprvektdkklispkigssis*yyiyfwktsincqnkhpiklnf**nnfffkk*iikki
iiyflntllnlfifntsvk***fy*kikiiysfkikinkkinnffffiid*csln*kkkk
kkkkkkkkkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U05408-1 (Contig-U05408-1Q)
/CSM_Contig/Contig-U05408-1Q.Seq.d
(577 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U05408-1 (Contig-U05408-1Q) /CSM_Contig/Conti... 285 3e-77
Contig-U13915-1 (Contig-U13915-1Q) /CSM_Contig/Conti... 34 0.16
Contig-U14562-1 (Contig-U14562-1Q) /CSM_Contig/Conti... 32 0.63
Contig-U14527-1 (Contig-U14527-1Q) /CSM_Contig/Conti... 32 0.63
Contig-U11408-1 (Contig-U11408-1Q) /CSM_Contig/Conti... 32 0.63
Contig-U10536-1 (Contig-U10536-1Q) /CSM_Contig/Conti... 32 0.63
Contig-U05705-1 (Contig-U05705-1Q) /CSM_Contig/Conti... 32 0.63
Contig-U02910-1 (Contig-U02910-1Q) /CSM_Contig/Conti... 32 0.63
Contig-U01934-1 (Contig-U01934-1Q) /CSM_Contig/Conti... 32 0.63
Contig-U14725-1 (Contig-U14725-1Q) /CSM_Contig/Conti... 30 2.5

>Contig-U05408-1 (Contig-U05408-1Q) /CSM_Contig/Contig-U05408-1Q.Seq.d
Length = 577

Score = 285 bits (144), Expect = 3e-77
Identities = 160/168 (95%)
Strand = Plus / Plus


Query: 136 attccacaaagagacacttctttttaaaattatnnnnnnnntgcgtatttttacccagag 195
||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 136 attccacaaagagacacttctttttaaaattataaaaaaaatgcgtatttttacccagag 195


Query: 196 tggagaaaacagataaaaagctgatatcaccaaaaattggtagttctatttcttaatact 255
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 196 tggagaaaacagataaaaagctgatatcaccaaaaattggtagttctatttcttaatact 255


Query: 256 atatatatttttggaaaacaagtataaattgccagaataaacatccaa 303
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 256 atatatatttttggaaaacaagtataaattgccagaataaacatccaa 303


Score = 109 bits (55), Expect = 3e-24
Identities = 55/55 (100%)
Strand = Plus / Plus


Query: 28 ttaaaaattgcaacgatcaaagttaatttttaaaagtttggatgtaaactgattg 82
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 28 ttaaaaattgcaacgatcaaagttaatttttaaaagtttggatgtaaactgattg 82


Score = 61.9 bits (31), Expect = 7e-10
Identities = 31/31 (100%)
Strand = Plus / Plus


Query: 406 atacaagtgttaagtaatagtaattttattg 436
|||||||||||||||||||||||||||||||
Sbjct: 406 atacaagtgttaagtaatagtaattttattg 436


Score = 50.1 bits (25), Expect = 3e-06
Identities = 25/25 (100%)
Strand = Plus / Plus


Query: 504 attatagattagtgcagtttgaatt 528
|||||||||||||||||||||||||
Sbjct: 504 attatagattagtgcagtttgaatt 528


>Contig-U13915-1 (Contig-U13915-1Q) /CSM_Contig/Contig-U13915-1Q.Seq.d
Length = 1720

Score = 34.2 bits (17), Expect = 0.16
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 420 taatagtaattttattg 436
|||||||||||||||||
Sbjct: 1045 taatagtaattttattg 1061


>Contig-U14562-1 (Contig-U14562-1Q) /CSM_Contig/Contig-U14562-1Q.Seq.d
Length = 1181

Score = 32.2 bits (16), Expect = 0.63
Identities = 16/16 (100%)
Strand = Plus / Minus


Query: 52 aatttttaaaagtttg 67
||||||||||||||||
Sbjct: 955 aatttttaaaagtttg 940


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: 4580
Number of Sequences: 6905
Number of extensions: 4580
Number of successful extensions: 528
Number of sequences better than 10.0: 101
length of query: 577
length of database: 5,674,871
effective HSP length: 16
effective length of query: 561
effective length of database: 5,564,391
effective search space: 3121623351
effective search space used: 3121623351
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 2009. 7.19
Homology vs DNA
Query= Contig-U05408-1 (Contig-U05408-1Q) /CSM_Contig/Contig-U05408-1Q.Seq.d
(577 letters)

Database: ddbj_B
105,743,758 sequences; 104,622,809,269 total letters

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

Score E
Sequences producing significant alignments: (bits) Value N

(AU073706) Dictyostelium discoideum slug cDNA, clone SSI115. 127 5e-40 3
(C90121) Dictyostelium discoideum slug cDNA, clone SSI115. 50 0.097 1
(CU672260) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 42 0.36 5
(FP017239) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 42 4.3 3
(CU677042) Synthetic construct Homo sapiens gateway clone IM... 44 6.0 1
(AC124450) Mus musculus BAC clone RP24-215C4 from chromosome... 44 6.0 1
(GC530913) Sequence 4423 from patent US 7411051. 44 6.0 1
(EA748174) Sequence 4423 from patent US 7368531. 44 6.0 1
(EA100233) Sequence 1861 from patent US 7193069. 44 6.0 1
(DL228985) Novel full length cDNA. 44 6.0 1
(DL210736) Full length cDNA. 44 6.0 1
(DL209054) Full length cDNA. 44 6.0 1
(DL178937) Novel full length cDNA. 44 6.0 1
(DJ032815) BIOMARKERS OF CYCLIN-DEPENDENT KINASE MODULATION. 44 6.0 1
(DD408188) Novel Nucleic Acids and Polypeptides. 44 6.0 1
(DD407532) Novel Nucleic Acids and Polypeptides. 44 6.0 1
(DD395709) COMPOSITIONS AND METHODS FOR THE DIAGNOSIS AND TR... 44 6.0 1
(DD389627) COMPOSITIONS AND METHODS FOR THE DIAGNOSIS AND TR... 44 6.0 1
(DD035762) Full length cDNA. 44 6.0 1
(CS168616) Sequence 1861 from Patent EP1580263. 44 6.0 1
(CQ850113) Sequence 582 from Patent EP1447413. 44 6.0 1
(CQ842845) Sequence 1492 from Patent EP1440981. 44 6.0 1
(CQ717748) Sequence 3682 from Patent WO02068579. 44 6.0 1
(CQ339131) Sequence 13225 from Patent WO0157275. 44 6.0 1
(CQ301938) Sequence 13043 from Patent WO0186003. 44 6.0 1
(CQ264849) Sequence 13110 from Patent WO0157277. 44 6.0 1
(CQ226706) Sequence 13545 from Patent WO0157273. 44 6.0 1
(CQ203342) Sequence 5619 from Patent WO0157271. 44 6.0 1
(CQ178992) Sequence 10388 from Patent WO0157274. 44 6.0 1
(CQ143503) Sequence 13525 from Patent WO0157276. 44 6.0 1
(CQ104800) Sequence 13659 from Patent WO0157272. 44 6.0 1
(CQ073911) Sequence 9711 from Patent WO0157278. 44 6.0 1
(CQ054666) Sequence 5486 from Patent WO0157270. 44 6.0 1
(BD458039) NOVEL POLYNUCLEOTIDES AND POLYPEPTIDES ENCODED TH... 44 6.0 1
(BD183383) Novel genes and proteins encoded by the genes. 44 6.0 1
(BD157818) Primer for synthesizing full-length cDNA and use ... 44 6.0 1
(AX879406) Sequence 14311 from Patent EP1074617. 44 6.0 1
(AX834737) Sequence 1861 from Patent EP1347046. 44 6.0 1
(AR338846) Sequence 337 from patent US 6569662. 44 6.0 1
(AR338845) Sequence 336 from patent US 6569662. 44 6.0 1
(BC019302) Homo sapiens LAS1-like (S. cerevisiae), mRNA (cDN... 44 6.0 1
(BC018610) Homo sapiens LAS1-like (S. cerevisiae), mRNA (cDN... 44 6.0 1
(BC014545) Homo sapiens LAS1-like (S. cerevisiae), mRNA (cDN... 44 6.0 1
(AL050306) Human DNA sequence from clone RP3-475B7 on chromo... 44 6.0 1
(AK225059) Homo sapiens mRNA for Splice isoform 2 of Q9Y4W2 ... 44 6.0 1
(AK127207) Homo sapiens cDNA FLJ45274 fis, clone BRHIP3000626. 44 6.0 1
(AK125760) Homo sapiens cDNA FLJ43772 fis, clone TESTI204957... 44 6.0 1
(AK097383) Homo sapiens cDNA FLJ40064 fis, clone TESOP200031... 44 6.0 1
(AK074087) Homo sapiens mRNA for FLJ00158 protein. 44 6.0 1
(AK054817) Homo sapiens cDNA FLJ30255 fis, clone BRACE200244... 44 6.0 1
(AK022587) Homo sapiens cDNA FLJ12525 fis, clone NT2RM400003... 44 6.0 1
(AF116730) Homo sapiens MSTP060 mRNA, complete cds. 44 6.0 1
(FH314928) CHO_OF4484xb12r1.ab1 CHO_OF4 Nicotiana tabacum ge... 44 6.0 1
(FH314848) CHO_OF4484xb12f1.ab1 CHO_OF4 Nicotiana tabacum ge... 44 6.0 1
(ET720107) CHO_OF120xi09r1.ab1 CHO_OF Nicotiana tabacum geno... 44 6.0 1
(DQ045581) Pan troglodytes FLJ12525 gene, VIRTUAL TRANSCRIPT... 44 6.0 1
(DQ045580) Homo sapiens FLJ12525 gene, VIRTUAL TRANSCRIPT, p... 44 6.0 1
(CR977901) RZPD Homo sapiens cDNA expression clone RZPDp9017... 44 6.0 1
(CN296802) 17000600016328 GRN_PRENEU Homo sapiens cDNA 5', m... 44 6.0 1
(CN296801) 17000424533966 GRN_ES Homo sapiens cDNA 5', mRNA ... 44 6.0 1
(CN296794) 17000600171995 GRN_PREHEP Homo sapiens cDNA 5', m... 44 6.0 1
(CN296793) 17000532267202 GRN_EB Homo sapiens cDNA 5', mRNA ... 44 6.0 1
(CD514382) AGENCOURT_14373295 NIH_MGC_181 Homo sapiens cDNA ... 44 6.0 1
(BX375450) human full-length cDNA 3-PRIME end of clone CS0DC... 44 6.0 1
(BX332502) human full-length cDNA 3-PRIME end of clone CS0DC... 44 6.0 1
(BU940382) AGENCOURT_10580037 NIH_MGC_128 Homo sapiens cDNA ... 44 6.0 1
(BU154367) AGENCOURT_7851956 NIH_MGC_67 Homo sapiens cDNA cl... 44 6.0 1
(BQ929081) AGENCOURT_10034697 NIH_MGC_40 Homo sapiens cDNA c... 44 6.0 1
(BQ918493) AGENCOURT_8826829 NIH_MGC_18 Homo sapiens cDNA cl... 44 6.0 1
(BQ052607) AGENCOURT_6871946 NIH_MGC_106 Homo sapiens cDNA c... 44 6.0 1
(BM983306) UI-CF-DU1-aav-o-14-0-UI.s1 UI-CF-DU1 Homo sapiens... 44 6.0 1
(BM559748) AGENCOURT_6592733 NIH_MGC_41 Homo sapiens cDNA cl... 44 6.0 1
(BM472657) AGENCOURT_6464140 NIH_MGC_72 Homo sapiens cDNA cl... 44 6.0 1
(BM049437) 603624048F1 NIH_MGC_40 Homo sapiens cDNA clone IM... 44 6.0 1
(BM010456) 603631407F1 NIH_MGC_41 Homo sapiens cDNA clone IM... 44 6.0 1
(BI860251) 603386957F1 NIH_MGC_87 Homo sapiens cDNA clone IM... 44 6.0 1
(BI261599) 602953687F1 NIH_MGC_99 Homo sapiens cDNA clone IM... 44 6.0 1
(BI198755) 602759774F1 NIH_MGC_19 Homo sapiens cDNA clone IM... 44 6.0 1
(BI116187) 602866110F1 NIH_MGC_7 Homo sapiens cDNA clone IMA... 44 6.0 1
(BG770215) 602744990F1 NIH_MGC_49 Homo sapiens cDNA clone IM... 44 6.0 1
(BG482047) 602527926F1 NIH_MGC_21 Homo sapiens cDNA clone IM... 44 6.0 1
(BG481986) 602527826F1 NIH_MGC_21 Homo sapiens cDNA clone IM... 44 6.0 1
(BG481299) 602528638F1 NIH_MGC_21 Homo sapiens cDNA clone IM... 44 6.0 1
(BG469429) 602532927F1 NIH_MGC_15 Homo sapiens cDNA clone IM... 44 6.0 1
(BG283906) 602407656F1 NIH_MGC_91 Homo sapiens cDNA clone IM... 44 6.0 1
(BG030577) 602297933F1 NIH_MGC_87 Homo sapiens cDNA clone IM... 44 6.0 1
(BF886516) PM3-TN0182-241000-003-h03 TN0182 Homo sapiens cDN... 44 6.0 1
(BF853546) MR2-EN0093-211200-002-c02 EN0093 Homo sapiens cDN... 44 6.0 1
(BF807077) IL5-CI0149-091100-223-e06 CI0149 Homo sapiens cDN... 44 6.0 1
(BF690766) 602246740F1 NIH_MGC_62 Homo sapiens cDNA clone IM... 44 6.0 1
(BF527460) 602039608F2 NCI_CGAP_Brn67 Homo sapiens cDNA clon... 44 6.0 1
(BE798944) 601583730F1 NIH_MGC_7 Homo sapiens cDNA clone IMA... 44 6.0 1
(BE797546) 601587474F1 NIH_MGC_7 Homo sapiens cDNA clone IMA... 44 6.0 1
(BE280104) 601158885F1 NIH_MGC_21 Homo sapiens cDNA clone IM... 44 6.0 1
(BE279024) 601156205F1 NIH_MGC_21 Homo sapiens cDNA clone IM... 44 6.0 1
(BE278902) 601156313F1 NIH_MGC_21 Homo sapiens cDNA clone IM... 44 6.0 1
(BE254447) 601111520F1 NIH_MGC_16 Homo sapiens cDNA clone IM... 44 6.0 1
(AW938884) PM0-DT0066-310100-001-b04 DT0066 Homo sapiens cDN... 44 6.0 1
(AC090102) Homo sapiens chromosome 8 clone RP11-157D9 map 8,... 42 6.8 2
(AC222698) Bos taurus clone CH240-441K3, WORKING DRAFT SEQUE... 40 9.6 2

>(AU073706) Dictyostelium discoideum slug cDNA, clone SSI115.
Length = 240

Score = 127 bits (64), Expect(3) = 5e-40
Identities = 64/64 (100%)
Strand = Plus / Plus


Query: 177 tgcgtatttttacccagagtggagaaaacagataaaaagctgatatcaccaaaaattggt 236
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 177 tgcgtatttttacccagagtggagaaaacagataaaaagctgatatcaccaaaaattggt 236


Query: 237 agtt 240
||||
Sbjct: 237 agtt 240

Score = 63.9 bits (32), Expect(3) = 5e-40
Identities = 32/32 (100%)
Strand = Plus / Plus


Query: 137 ttccacaaagagacacttctttttaaaattat 168
||||||||||||||||||||||||||||||||
Sbjct: 137 ttccacaaagagacacttctttttaaaattat 168

Score = 30.2 bits (15), Expect(3) = 5e-40
Identities = 15/15 (100%)
Strand = Plus / Plus


Query: 35 ttgcaacgatcaaag 49
|||||||||||||||
Sbjct: 35 ttgcaacgatcaaag 49

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 105743758
Number of Hits to DB: 316,771,589
Number of extensions: 20165801
Number of successful extensions: 1948609
Number of sequences better than 10.0: 100
Length of query: 577
Length of database: 104,622,809,269
Length adjustment: 23
Effective length of query: 554
Effective length of database: 102,190,702,835
Effective search space: 56613649370590
Effective search space used: 56613649370590
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 8. 1
Homology vs Protein
Query= Contig-U05408-1 (Contig-U05408-1Q) /CSM_Contig/Contig-U05408-1Q.Seq.d
(577 letters)

Database: nrp_A
3,268,448 sequences; 1,061,185,681 total letters

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

Score E
Sequences producing significant alignments: (bits) Value

CR940348_106(CR940348|pid:none) Theileria annulata strain Ankara... 32 9.5
AY382608_3(AY382608|pid:none) Xiphinema americanum mitochondrion... 32 9.5

>CR940348_106(CR940348|pid:none) Theileria annulata strain Ankara
isolate clone C9, *** SEQUENCING IN PROGRESS ***.
Length = 2559

Score = 32.3 bits (72), Expect = 9.5
Identities = 16/53 (30%), Positives = 28/53 (52%)
Frame = -2

Query: 297 VYSGNLYLFSKNIYSIKK*NYQFLVISAFYLFSPLWVKIRIFFIILKRSVSLW 139
+Y G +Y S+ S++ +YQ L I FY+ P+W+ + IL + L+
Sbjct: 1305 LYLGIIYFSSRR--SLRLSSYQILRIVPFYILIPVWITFTVILNILSNLLQLY 1355

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: 3268448
Number of Hits to DB: 438,715,462
Number of extensions: 5714517
Number of successful extensions: 8845
Number of sequences better than 10.0: 2
Number of HSP's gapped: 8845
Number of HSP's successfully gapped: 2
Length of query: 192
Length of database: 1,061,185,681
Length adjustment: 122
Effective length of query: 70
Effective length of database: 662,435,025
Effective search space: 46370451750
Effective search space used: 46370451750
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: 30 (16.2 bits)

PSORT

psg: 0.57 gvh: 0.07 alm: 0.64 top: 0.53 tms: 0.00 mit: 0.31 mip: 0.00
nuc: 1.01 erl: 0.00 erm: 0.80 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

76.0 %: nuclear
20.0 %: cytoplasmic
4.0 %: mitochondrial

>> prediction for Contig-U05408-1 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) 1
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