Contig-U16338-1
Contig ID Contig-U16338-1
Contig update 2004. 6.11
Contig sequence
>Contig-U16338-1 (Contig-U16338-1Q) /CSM_Contig/Contig-U16338-1Q.Seq.d
ATAATTTTTTATTTTTCATCCTTTTCAATTAAATTCATTTGTATATATAT
AACTTCACACACCTCAAAACAATTTATTTGATTATTTAAATATTTAAATA
ACATTTTAAAAATAGATTGTGTGTGCTTTTTATTATATAAAAATAATTTA
AATTTTATATAAAAAAAAAAAAATCAAAAAAAAAA

Gap no gap
Contig length 185
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 41
Number of EST 41
Link to clone list U16338
List of clone(s)

est1=SHB762F,-15,185
est2=SHJ534F,-13,185
est3=SHJ567F,-4,185
est4=SHJ896F,-2,185
est5=AHJ318F,0,185
est6=AHG381F,1,185
est7=AHP471F,1,171
est8=CHF728F,1,185
est9=SHC679F,1,185
est10=VHD447F,1,185
est11=VHD751F,1,185
est12=AHA477F,3,185
est13=AHB220F,3,185
est14=AHE269F,3,185
est15=AHG544F,3,185
est16=SHA286F,3,185
est17=SHI134F,3,185
est18=VHH804F,3,185
est19=VHN340F,3,184
est20=VHN852F,3,184
est21=AHH301F,4,185
est22=SHA205F,6,185
est23=VHG673F,6,185
est24=AHI328F,11,185
est25=VHE723F,11,185
est26=VHH301F,11,185
est27=AHL338F,18,185
est28=AHN362F,18,185
est29=SHL360F,18,185
est30=SHL839F,27,185
est31=SHF380F,28,185
est32=AHJ555F,32,185
est33=AHO485F,32,185
est34=SHF212F,32,185
est35=SHF388F,32,185
est36=SHH317F,32,185
est37=AHM851F,34,185
est38=AHI226F,42,185
est39=AHE884F,46,185
est40=SHD188F,46,185
est41=AHC338F,59,185
Translated Amino Acid sequence
IIFYFSSFSIKFICIYITSHTSKQFI*lfkylnnilkidcvcfllyknnlnfi*kkknqk
k


Translated Amino Acid sequence (All Frames)
Frame A:
IIFYFSSFSIKFICIYITSHTSKQFI*lfkylnnilkidcvcfllyknnlnfi*kkknqk
k


Frame B:
*ffifhpfqlnsfvyi*lhtpqnnlfdylni*itf*k*ivcafyyikii*ilykkkkikk
k


Frame C:
nflffilfn*ihlyiynfthlktiylii*ifk*hfknrlcvlfii*k*fkfyikkkkskk
k


own update 2004. 6.23
Homology vs CSM-cDNA
Query= Contig-U16338-1 (Contig-U16338-1Q)
/CSM_Contig/Contig-U16338-1Q.Seq.d
(185 letters)

Database: CSM
8402 sequences; 8,075,542 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U16338-1 (Contig-U16338-1Q) /CSM_Contig/Conti... 285 1e-77
Contig-U15646-1 (Contig-U15646-1Q) /CSM_Contig/Conti... 42 3e-04
Contig-U16385-1 (Contig-U16385-1Q) /CSM_Contig/Conti... 38 0.004
Contig-U15598-1 (Contig-U15598-1Q) /CSM_Contig/Conti... 38 0.004
Contig-U15136-1 (Contig-U15136-1Q) /CSM_Contig/Conti... 38 0.004
Contig-U15004-1 (Contig-U15004-1Q) /CSM_Contig/Conti... 38 0.004
Contig-U03580-1 (Contig-U03580-1Q) /CSM_Contig/Conti... 38 0.004
Contig-U03396-1 (Contig-U03396-1Q) /CSM_Contig/Conti... 38 0.004
Contig-U16209-1 (Contig-U16209-1Q) /CSM_Contig/Conti... 36 0.017
Contig-U15444-1 (Contig-U15444-1Q) /CSM_Contig/Conti... 36 0.017

>Contig-U16338-1 (Contig-U16338-1Q) /CSM_Contig/Contig-U16338-1Q.Seq.d
Length = 185

Score = 285 bits (144), Expect = 1e-77
Identities = 144/144 (100%)
Strand = Plus / Plus


Query: 17 catccttttcaattaaattcatttgtatatatataacttcacacacctcaaaacaattta 76
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 17 catccttttcaattaaattcatttgtatatatataacttcacacacctcaaaacaattta 76


Query: 77 tttgattatttaaatatttaaataacattttaaaaatagattgtgtgtgctttttattat 136
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 77 tttgattatttaaatatttaaataacattttaaaaatagattgtgtgtgctttttattat 136


Query: 137 ataaaaataatttaaattttatat 160
||||||||||||||||||||||||
Sbjct: 137 ataaaaataatttaaattttatat 160


Score = 40.1 bits (20), Expect = 0.001
Identities = 20/20 (100%)
Strand = Plus / Minus


Query: 82 ttatttaaatatttaaataa 101
||||||||||||||||||||
Sbjct: 101 ttatttaaatatttaaataa 82


>Contig-U15646-1 (Contig-U15646-1Q) /CSM_Contig/Contig-U15646-1Q.Seq.d
Length = 2045

Score = 42.1 bits (21), Expect = 3e-04
Identities = 21/21 (100%)
Strand = Plus / Minus


Query: 71 aatttatttgattatttaaat 91
|||||||||||||||||||||
Sbjct: 1966 aatttatttgattatttaaat 1946


>Contig-U16385-1 (Contig-U16385-1Q) /CSM_Contig/Contig-U16385-1Q.Seq.d
Length = 3581

Score = 38.2 bits (19), Expect = 0.004
Identities = 19/19 (100%)
Strand = Plus / Minus


Query: 76 atttgattatttaaatatt 94
|||||||||||||||||||
Sbjct: 1203 atttgattatttaaatatt 1185


Database: CSM
Posted date: Jun 21, 2004 1:35 PM
Number of letters in database: 8,075,542
Number of sequences in database: 8402

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: 11,855
Number of Sequences: 8402
Number of extensions: 11855
Number of successful extensions: 4283
Number of sequences better than 10.0: 586
length of query: 185
length of database: 8,075,542
effective HSP length: 15
effective length of query: 170
effective length of database: 7,949,512
effective search space: 1351417040
effective search space used: 1351417040
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. 3.28
Homology vs DNA
Query= Contig-U16338-1 (Contig-U16338-1Q) /CSM_Contig/Contig-U16338-1Q.Seq.d
(185 letters)

Database: ddbj_B
98,226,423 sequences; 98,766,808,389 total letters

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

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

(BJ422140) Dictyostelium discoideum cDNA clone:ddv45b01, 5' ... 149 4e-32 1
(BJ420202) Dictyostelium discoideum cDNA clone:ddv38f13, 5' ... 149 4e-32 1
(BJ364881) Dictyostelium discoideum cDNA clone:ddc33h07, 5' ... 149 4e-32 1
(BJ334658) Dictyostelium discoideum cDNA clone:dda47h07, 5' ... 149 4e-32 1
(BJ333711) Dictyostelium discoideum cDNA clone:dda43b21, 5' ... 149 4e-32 1
(BJ332579) Dictyostelium discoideum cDNA clone:dda39i18, 5' ... 149 4e-32 1
(BJ397513) Dictyostelium discoideum cDNA clone:dds46h15, 5' ... 147 2e-31 1
(BJ337490) Dictyostelium discoideum cDNA clone:dda57l15, 5' ... 147 2e-31 1
(BJ426321) Dictyostelium discoideum cDNA clone:ddv58h14, 5' ... 145 6e-31 1
(BJ425905) Dictyostelium discoideum cDNA clone:ddv57p09, 5' ... 145 6e-31 1
(BJ333871) Dictyostelium discoideum cDNA clone:dda44g11, 5' ... 145 6e-31 1
(BJ338483) Dictyostelium discoideum cDNA clone:dda61n18, 5' ... 129 4e-27 2
(BJ420716) Dictyostelium discoideum cDNA clone:ddv40n05, 5' ... 129 4e-27 2
(BJ422069) Dictyostelium discoideum cDNA clone:ddv44a20, 5' ... 129 4e-27 2
(BJ391489) Dictyostelium discoideum cDNA clone:dds24i02, 5' ... 129 4e-27 2
(BJ334065) Dictyostelium discoideum cDNA clone:dda45b01, 5' ... 129 4e-27 2
(BJ395812) Dictyostelium discoideum cDNA clone:dds40c09, 5' ... 129 4e-27 2
(BJ391709) Dictyostelium discoideum cDNA clone:dds24k22, 5' ... 129 4e-27 2
(BJ330877) Dictyostelium discoideum cDNA clone:dda33g06, 5' ... 129 4e-27 2
(BJ422493) Dictyostelium discoideum cDNA clone:ddv46h02, 5' ... 129 4e-27 2
(BJ330534) Dictyostelium discoideum cDNA clone:dda31j20, 5' ... 129 4e-27 2
(BJ419858) Dictyostelium discoideum cDNA clone:ddv37n12, 5' ... 129 4e-27 2
(BJ335126) Dictyostelium discoideum cDNA clone:dda49d05, 5' ... 129 4e-27 2
(BJ396791) Dictyostelium discoideum cDNA clone:dds43p24, 5' ... 129 4e-27 2
(BJ396679) Dictyostelium discoideum cDNA clone:dds43e17, 5' ... 129 4e-27 2
(BJ396602) Dictyostelium discoideum cDNA clone:dds43c09, 5' ... 129 4e-27 2
(BJ392435) Dictyostelium discoideum cDNA clone:dds27l15, 5' ... 129 5e-27 2
(BJ397748) Dictyostelium discoideum cDNA clone:dds47n10, 5' ... 129 4e-26 1
(BJ394394) Dictyostelium discoideum cDNA clone:dds34p19, 5' ... 129 4e-26 1
(BJ393050) Dictyostelium discoideum cDNA clone:dds29m20, 5' ... 129 4e-26 1
(BJ336294) Dictyostelium discoideum cDNA clone:dda53l09, 5' ... 129 4e-26 1
(BJ394395) Dictyostelium discoideum cDNA clone:dds34p21, 5' ... 121 9e-24 1
(BJ394172) Dictyostelium discoideum cDNA clone:dds34g04, 5' ... 121 9e-24 1
(BJ338040) Dictyostelium discoideum cDNA clone:dda59j22, 5' ... 121 9e-24 1
(BJ337185) Dictyostelium discoideum cDNA clone:dda56f14, 5' ... 117 1e-22 1
(BJ395200) Dictyostelium discoideum cDNA clone:dds38b05, 5' ... 107 1e-19 1
(BJ338128) Dictyostelium discoideum cDNA clone:dda60n03, 5' ... 107 1e-19 1
(BJ335550) Dictyostelium discoideum cDNA clone:dda50m13, 5' ... 107 1e-19 1
(BJ334639) Dictyostelium discoideum cDNA clone:dda47c08, 5' ... 101 8e-18 1
(BJ393334) Dictyostelium discoideum cDNA clone:dds30o21, 5' ... 94 2e-15 1
(BJ332789) Dictyostelium discoideum cDNA clone:dda40h22, 5' ... 94 2e-15 1
(BJ331449) Dictyostelium discoideum cDNA clone:dda35l09, 5' ... 68 1e-07 1
(EY369517) CAXA12404.rev CAXA Helobdella robusta Subtracted ... 32 0.084 3
(CT027790) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 36 0.58 3
(BE124023) EST394148 DSIL Medicago truncatula cDNA clone pDS... 36 0.76 2
(CF069535) EST670256 MTUS Medicago truncatula cDNA clone MTU... 36 0.80 2
(CT027597) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 38 0.91 4
(BG581963) EST483700 GVN Medicago truncatula cDNA clone pGVN... 36 1.00 2
(EJ920306) 1093018623304 Global-Ocean-Sampling_GS-30-02-01-1... 34 1.1 2
(EJ834914) 1093017612441 Global-Ocean-Sampling_GS-30-02-01-1... 34 1.2 2
(AC189628) Brassica rapa subsp. pekinensis clone KBrS003D10,... 44 1.4 2
(AC146177) Pan troglodytes BAC clone RP43-35P5 from chromoso... 44 1.7 1
(AC145900) Pan troglodytes BAC clone RP43-40I9 from chromoso... 44 1.7 1
(AC189549) Brassica rapa subsp. pekinensis clone KBrH005C21,... 44 1.7 1
(AC005048) Homo sapiens BAC clone CTB-15P3 from 7, complete ... 44 1.7 1
(CU993804) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 1.7 1
(CU928728) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 1.7 1
(CU914425) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 1.7 1
(CU914311) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 1.7 1
(AC232535) Brassica rapa subsp. pekinensis clone KBrB091M11,... 44 1.7 1
(AC219904) Bos taurus clone CH240-318M3, WORKING DRAFT SEQUE... 44 1.7 1
(AC164375) Bos taurus clone CH240-149A11, *** SEQUENCING IN ... 44 1.7 1
(ED774500) GM_WBb0150O02.f GM_WBb Glycine max genomic clone ... 44 1.7 1
(DX896395) KBrH026N17R KBrH, Brassica rapa HindIII BAC libra... 44 1.7 1
(DX896391) KBrH026N15R KBrH, Brassica rapa HindIII BAC libra... 44 1.7 1
(DX892975) KBrH021K06R KBrH, Brassica rapa HindIII BAC libra... 44 1.7 1
(CC531347) CH240_408G2.T7 CHORI-240 Bos taurus genomic clone... 44 1.7 1
(B71190) CIT-HSP-2028K12.TFB CIT-HSP Homo sapiens genomic cl... 44 1.7 1
(AG167777) Pan troglodytes DNA, clone: RP43-035P05.T7. 44 1.7 1
(BI462977) 603204189F1 NIH_MGC_97 Homo sapiens cDNA clone IM... 44 1.7 1
(GE339516) hzjkab0_003039.z1.scf cDNA library of Bruguiera g... 44 1.7 1
(CT025892) Zebrafish DNA sequence from clone DKEY-26I16 in l... 38 1.8 3
(AY953017) Platysmacheilus longibarbatus cytochrome b (cytb)... 32 2.1 3
(CU830098) A BAC library has been constructed from PN40024 g... 40 2.2 2
(AC125217) Mus musculus BAC clone RP23-112D14 from 8, comple... 40 2.7 2
(AC171733) Solanum lycopersicum chromosome 11 clone C11HBa00... 32 3.4 2
(CT497801) A BAC library has been constructed from cultivar ... 32 3.5 2
(CU457805) S.lycopersicum DNA sequence from clone SL_MboI-12... 32 3.5 2
(EJ819043) 1093017529374 Global-Ocean-Sampling_GS-30-02-01-1... 34 4.3 2
(DY683252) TTEAJ91THC Tetrahymena thermophila EST library, c... 36 4.6 2
(CX575708) TTE00017553 Amplicon Express - Conjugative Form T... 36 5.4 2
(BX005339) Zebrafish DNA sequence from clone DKEY-71C4 in li... 42 6.6 1
(AM484008) Vitis vinifera contig VV78X172617.2, whole genome... 42 6.6 1
(AM446303) Vitis vinifera contig VV78X167278.2, whole genome... 42 6.6 1
(AM429766) Vitis vinifera contig VV78X151638.7, whole genome... 42 6.6 1
(AR556011) Sequence 11142 from patent US 6747137. 42 6.6 1
(AC155920) Monodelphis domestica, clone XX-22D10, complete s... 42 6.6 1
(AC117072) Dictyostelium discoideum chromosome 2 map 3879572... 42 6.6 1
(AC126896) Rattus norvegicus clone CH230-300E3, *** SEQUENCI... 42 6.6 1
(AC118968) Rattus norvegicus clone CH230-184P18, *** SEQUENC... 42 6.6 1
(AC095607) Rattus norvegicus clone CH230-8N21, WORKING DRAFT... 42 6.6 1
(AC201514) Strongylocentrotus purpuratus clone R3-3085H5, WO... 42 6.6 1
(AC200991) Strongylocentrotus purpuratus clone R3-12C11, WOR... 42 6.6 1
(AC192510) Cavia porcellus clone CH234-497A8, WORKING DRAFT ... 42 6.6 1
(AC180667) Strongylocentrotus purpuratus clone R3-3089K13, W... 42 6.6 1
(AC180382) Strongylocentrotus purpuratus clone R3-3113M19, W... 42 6.6 1
(AC180288) Strongylocentrotus purpuratus clone R3-3122E19, W... 42 6.6 1
(AC177372) Strongylocentrotus purpuratus clone R3-52M10, WOR... 42 6.6 1
(ET763276) CHO_OF158xf21r1.ab1 CHO_OF Nicotiana tabacum geno... 42 6.6 1
(ER502310) 1093015406522 Global-Ocean-Sampling_GS-35-01-01-1... 42 6.6 1
(EK566121) 1095521042527 Global-Ocean-Sampling_GS-32-01-01-1... 42 6.6 1
(EK410524) 1095505162055 Global-Ocean-Sampling_GS-31-01-01-1... 42 6.6 1
(ED799180) MG__Ba0050I21r MG__Ba Mimulus guttatus genomic, g... 42 6.6 1
(BH923775) odi80f01.b1 B.oleracea002 Brassica oleracea genom... 42 6.6 1
(EH013206) USDA-FP_186029 Lysiphlebus testaceipes adult whol... 42 6.6 1
(AU034911) Dictyostelium discoideum slug cDNA, clone SLE682. 42 6.6 1
(C83890) Dictyostelium discoideum slug cDNA, clone SSA528. 42 6.6 1
(BM161583) EST564106 PyBS Plasmodium yoelii yoelii cDNA clon... 42 6.6 1
(BF297667) 054PbF04 Pb cDNA #17, Tommaso Pace, Marta Ponzi, ... 42 6.6 1
(FE426550) RM05518.5prime RM Drosophila melanogaster mixed e... 42 6.6 1
(FD376962) CBPN7982.g1 CBPN: Subtracted channel catfish cDNA... 42 6.6 1
(FD366351) CBPN44922.g1 CBPN: Subtracted channel catfish cDN... 42 6.6 1
(FD350730) CBPN29177.g1 CBPN: Subtracted channel catfish cDN... 42 6.6 1
(FD324692) CBPN12039.g1 CBPN: Subtracted channel catfish cDN... 42 6.6 1
(FD188705) CBZA20575.g1 CBZA: Normalized channel catfish cDN... 42 6.6 1
(FD187385) CBZA19839.g1 CBZA: Normalized channel catfish cDN... 42 6.6 1
(FD177926) CBZA14364.g1 CBZA: Normalized channel catfish cDN... 42 6.6 1
(FD137907) CBZB8840.g1 CBZB: Normalized channel catfish cDNA... 42 6.6 1
(FD135900) CBZB7642.g1 CBZB: Normalized channel catfish cDNA... 42 6.6 1
(FD062460) CBPO7515.g1 CBPO: Normalized channel catfish cDNA... 42 6.6 1
(AW792969) CM0-UM0001-060300-270-d05 UM0001 Homo sapiens cDN... 42 6.6 1
(DE334928) Bombyx mori genomic DNA, BAC clone:BET_016_N09. 34 7.0 2
(AX652646) Sequence 2516 from Patent WO03000898. 36 8.2 2
(AX508915) Sequence 3610 from Patent WO0216655. 36 8.2 2
(AP001798) Homo sapiens genomic DNA, chromosome 18q12 clone:... 40 8.6 2
(DB770606) Apis mellifera head cDNA, RIKEN full-length enric... 36 8.7 2
(DB777177) Apis mellifera head cDNA, RIKEN full-length enric... 36 8.9 2
(AC087683) Homo sapiens chromosome 18, clone RP11-687E1, com... 40 9.2 2
(AC090239) Homo sapiens chromosome 18, clone RP11-746A20, co... 40 9.3 2

>(BJ422140) Dictyostelium discoideum cDNA clone:ddv45b01, 5' end,
single read.
Length = 174

Score = 149 bits (75), Expect = 4e-32
Identities = 75/75 (100%)
Strand = Plus / Plus


Query: 17 catccttttcaattaaattcatttgtatatatataacttcacacacctcaaaacaattta 76
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7 catccttttcaattaaattcatttgtatatatataacttcacacacctcaaaacaattta 66


Query: 77 tttgattatttaaat 91
|||||||||||||||
Sbjct: 67 tttgattatttaaat 81

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 98226423
Number of Hits to DB: 167,458,385
Number of extensions: 11871177
Number of successful extensions: 3770940
Number of sequences better than 10.0: 129
Length of query: 185
Length of database: 98,766,808,389
Length adjustment: 22
Effective length of query: 163
Effective length of database: 96,605,827,083
Effective search space: 15746749814529
Effective search space used: 15746749814529
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 7.27
Homology vs Protein
Query= Contig-U16338-1 (Contig-U16338-1Q) /CSM_Contig/Contig-U16338-1Q.Seq.d
(185 letters)

Database: nrp_A
3,268,448 sequences; 1,061,185,681 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: 3268448
Number of Hits to DB: 173,941,094
Number of extensions: 2104079
Number of successful extensions: 2974
Number of sequences better than 10.0: 0
Number of HSP's gapped: 2974
Number of HSP's successfully gapped: 0
Length of query: 61
Length of database: 1,061,185,681
Length adjustment: 33
Effective length of query: 28
Effective length of database: 953,326,897
Effective search space: 26693153116
Effective search space used: 26693153116
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: 26 (14.6 bits)

PSORT

psg: 0.92 gvh: 0.38 alm: 0.31 top: 0.63 tms: 0.07 mit: 0.41 mip: 0.00
nuc: 0.00 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: 1.00 tyr: 0.38 leu: 0.00 gpi: 0.00 myr: 0.00
dna: 0.00 rib: 0.00 bac: 0.00 m1a: 0.00 m1b: 1.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 0.00

28.0 %: cytoplasmic
24.0 %: mitochondrial
24.0 %: nuclear
8.0 %: plasma membrane
8.0 %: endoplasmic reticulum
4.0 %: vesicles of secretory system
4.0 %: peroxisomal

>> prediction for Contig-U16338-1 is cyt

VS (DIR, S) 0
VH (FL, L) 8
VF (FL, S) 0
AH (FL, L) 17
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 15
SF (FL, S) 0
CH (FL, L) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0