Contig-U07017-1 |
Contig ID |
Contig-U07017-1 |
Contig update |
2001. 8.30 |
Contig sequence |
|
Gap |
no gap |
Contig length |
546 |
Chromosome number (1..6, M) |
4 |
Chromosome length |
5430582 |
Start point |
1311386 |
End point |
1310840 |
Strand (PLUS/MINUS) |
MINUS |
Number of clones |
1 |
Number of EST |
1 |
Link to clone list |
U07017 |
List of clone(s) |
|
Translated Amino Acid sequence |
|
Translated Amino Acid sequence (All Frames) |
|
own update |
2004. 6.10 |
Homology vs CSM-cDNA |
|
dna update |
2008.11.11 |
Homology vs DNA |
Query= Contig-U07017-1 (Contig-U07017-1Q) /CSM_Contig/Contig-U07017-1Q.Seq.d (546 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
(AU270139) Dictyostelium discoideum vegetative cDNA clone:VS... 803 0.0 1 (AU270140) Dictyostelium discoideum vegetative cDNA clone:VS... 747 0.0 1 (C84125) Dictyostelium discoideum slug cDNA, clone SSC829. 40 0.002 3 (AC116551) Dictyostelium discoideum chromosome 2 map complem... 40 0.003 7 (AC117176) Dictyostelium discoideum chromosome 2 map 5018074... 40 0.016 8 (BX284621) Zebrafish DNA sequence from clone CH211-207N6. 50 0.016 5 (AC225595) Homo sapiens FOSMID clone ABC14-50997500E11 from ... 44 0.030 2 (EK191986) 1095460022071 Global-Ocean-Sampling_GS-31-01-01-1... 36 0.055 3 (AP005140) Homo sapiens genomic DNA, chromosome 11 clone:CMB... 44 0.080 2 (CR932440) Zebrafish DNA sequence from clone CH211-247J17 in... 50 0.083 1 (CR450739) Zebrafish DNA sequence from clone DKEY-175B17 in ... 50 0.083 1 (AL935288) Zebrafish DNA sequence from clone CH211-250C4. 50 0.083 1 (CU234141) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 50 0.083 1 (CT573411) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 50 0.083 1 (AF087656) Agrocybe aegerita large subunit ribosomal RNA gen... 38 0.093 4 (CR848052) Zebrafish DNA sequence from clone DKEY-28F6 in li... 44 0.11 3 (AC191385) Pan troglodytes chromosome 11 clone CH251-510M10,... 44 0.12 2 (CU302401) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 38 0.13 4 (AZ625244) 1M0464F05R Mouse 10kb plasmid UUGC1M library Mus ... 40 0.13 2 (AC231672) Solanum tuberosum chromosome 11 clone RH186L12, c... 36 0.28 5 (AC092567) Homo sapiens BAC clone CTD-2010B19 from 2, comple... 38 0.29 6 (AC146752) Medicago truncatula clone mth2-62d4, complete seq... 36 0.32 5 (BX323543) Zebrafish DNA sequence from clone DKEYP-67E1 in l... 48 0.33 1 (AC106830) Mus musculus chromosome 15, clone RP24-402C20, co... 48 0.33 1 (EA770792) Sequence 6 from patent US 7381544. 48 0.33 1 (EA268608) Sequence 6 from patent US 7244601. 48 0.33 1 (BD374741) Fusion Proteins for Use in Enzymatic Synthesis of... 48 0.33 1 (CR855304) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 48 0.33 1 (ED650621) GM_WBa0068J09.r GM_WBa Glycine max genomic clone ... 48 0.33 1 (CL490513) SAIL_539_F11.v2 SAIL Collection Arabidopsis thali... 48 0.33 1 (EC825433) SME00009125 esmbsro2 Sawyeria marylandensis cDNA,... 48 0.33 1 (BX927372) Zebrafish DNA sequence from clone CH211-241H14 in... 34 0.47 6 (DW282640) UI-S-HH0-adx-i-04-0-UI.s1 UI-S-HH0 Euprymna scolo... 36 0.49 3 (AX344551) Sequence 2 from Patent WO0200932. 42 0.49 8 (AC087860) Bos taurus clone RP42-135P2, complete sequence. 46 0.50 2 (AC010255) Homo sapiens chromosome 5 clone CTC-441N14, compl... 42 0.50 5 (CZ870822) OC__Ba0269D24.f OC__Ba Oryza coarctata genomic cl... 34 0.54 3 (EJ881187) 1093018397029 Global-Ocean-Sampling_GS-30-02-01-1... 38 0.68 2 (EK586199) 1095522082703 Global-Ocean-Sampling_GS-32-01-01-1... 36 0.68 2 (EJ269771) 1095353003386 Global-Ocean-Sampling_GS-27-01-01-1... 40 0.71 2 (AC166406) Bos taurus clone CH240-68N11, WORKING DRAFT SEQUE... 36 0.74 4 (AJ844309) Himantopterus dohertyi mitochondrial partial tRNA... 42 0.75 2 (CT583658) Zebrafish DNA sequence from clone DKEY-114L24 in ... 38 0.81 3 (AX349036) Sequence 494 from Patent WO0202807. 34 0.82 4 (AC116979) Dictyostelium discoideum chromosome 2 map 6445720... 34 0.83 7 (AJ844318) Phauda mimica mitochondrial partial tRNA-Ser gene... 36 0.91 2 (AC018561) Homo sapiens clone RP11-1N8, WORKING DRAFT SEQUEN... 32 0.94 9 (CR456684) Zebrafish DNA sequence from clone DKEY-46I8 in li... 40 1.0 4 (DJ387405) Diagnosis of Diseases Associated with Apoptosis. 46 1.1 2 (AX346210) Sequence 1281 from Patent WO0200928. 46 1.1 2 (AX281313) Sequence 55 from Patent WO0177164. 46 1.1 2 (AM467093) Vitis vinifera contig VV78X210055.4, whole genome... 36 1.1 2 (AF494278) Chaetosphaeridium globosum chloroplast, complete ... 38 1.2 6 (AP009972) Lotus japonicus genomic DNA, chromosome 3, clone:... 46 1.2 2 (BX927115) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 34 1.3 5 (AC223958) Bos taurus clone CH240-453I17, WORKING DRAFT SEQU... 46 1.3 4 (AC154881) Mus musculus chromosome 15, clone RP24-259H19, co... 46 1.3 1 (AC175366) Pan troglodytes chromosome X clone CH251-499L9 ma... 46 1.3 1 (AC165137) Pan troglodytes chromosome X clone PTB-012N04 map... 46 1.3 1 (AM464041) Vitis vinifera contig VV78X074917.2, whole genome... 46 1.3 1 (AM452760) Vitis vinifera, whole genome shotgun sequence, co... 46 1.3 1 (AL161594) Arabidopsis thaliana DNA chromosome 4, contig fra... 46 1.3 1 (AL050351) Arabidopsis thaliana DNA chromosome 4, BAC clone ... 46 1.3 1 (AC146588) Medicago truncatula chromosome 8 clone mth2-145c3... 46 1.3 1 (DD010735) Diagnosis of known genetic Parameters within the ... 46 1.3 1 (AX510598) Sequence 5293 from Patent WO0216655. 46 1.3 1 (AX344561) Sequence 12 from Patent WO0200932. 46 1.3 1 (AL359757) Human DNA sequence from clone RP11-165I9 on chrom... 46 1.3 1 (AF241726) Homo sapiens chromosome X, clones RP5-819E23 and ... 46 1.3 1 (AC092633) Homo sapiens BAC clone RP11-339P1 from 2, complet... 46 1.3 1 (AC101708) Mus musculus clone RP23-268E6, LOW-PASS SEQUENCE ... 46 1.3 1 (CU914717) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 46 1.3 1 (CU896552) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 46 1.3 1 (BX324168) Human DNA sequence *** SEQUENCING IN PROGRESS ***... 46 1.3 1 (AC221197) Bos taurus clone CH240-398N20, WORKING DRAFT SEQU... 46 1.3 1 (AC174365) Medicago truncatula chromosome 8 clone mth2-45k17... 46 1.3 1 (FH080430) CHO_OF3708xj02r1.ab1 CHO_OF3 Nicotiana tabacum ge... 46 1.3 1 (FH075258) CHO_OF3688xm23f1.ab1 CHO_OF3 Nicotiana tabacum ge... 46 1.3 1 (FH041296) CHO_OF3309xf10f1.ab1 CHO_OF3 Nicotiana tabacum ge... 46 1.3 1 (EK436230) 1095521046539 Global-Ocean-Sampling_GS-31-01-01-1... 46 1.3 1 (EK167650) 1095458060171 Global-Ocean-Sampling_GS-31-01-01-1... 46 1.3 1 (AL764757) Arabidopsis thaliana T-DNA flanking sequence GK-1... 46 1.3 1 (EJ173873) 1092344093237 Global-Ocean-Sampling_GS-27-01-01-1... 46 1.3 1 (CR834421) GR0AAA68CD05RM1 INRA BAC Bos taurus genomic clone... 46 1.3 1 (CR513400) mth4-42M16FM2 BAC end, cultivar Jemalong A17 of M... 46 1.3 1 (CR513233) mth4-42M15FM2 BAC end, cultivar Jemalong A17 of M... 46 1.3 1 (AG529383) Mus musculus molossinus DNA, clone:MSMg01-438O09.... 46 1.3 1 (CC925789) t084n11ba.f1 TAMBT Bos taurus genomic clone t084n... 46 1.3 1 (EB935246) 11539238 ZF31XL Danio rerio cDNA clone 3551918, m... 46 1.3 1 (AC185044) Bos taurus clone CH240-267A19, WORKING DRAFT SEQU... 40 1.4 2 (AF250284) Amsacta moorei entomopoxvirus, complete genome. 34 1.5 7 (CU183096) Zebrafish DNA sequence *** SEQUENCING CANCELLED *... 44 1.5 5 (AY942850) Meloidogyne hapla cytochrome oxidase subunit II (... 38 1.5 2 (AL133466) Human DNA sequence from clone RP5-831C21 on chrom... 40 1.5 4 (AJ294725) Astasia longa complete chloroplast genome. 44 1.6 4 (AM285321) Spiroplasma citri GII3-3X chromosome, contig Cont... 38 1.8 5 (FL641192) TS01-H11 Reticulitermes flavipes symbiont library... 38 1.9 2 (AF268060) Candidatus Carsonella ruddii natural-host Aphalar... 40 1.9 2 (ER327388) 1092344223698 Global-Ocean-Sampling_GS-34-01-01-1... 32 2.0 3 (AC177299) Strongylocentrotus purpuratus clone R3-1033E2, WO... 34 2.0 4
>(AU270139) Dictyostelium discoideum vegetative cDNA clone:VSJ576, 5' end single read. Length = 405
Score = 803 bits (405), Expect = 0.0 Identities = 405/405 (100%) Strand = Plus / Plus
Query: 1 aaataaacaaaataataataaaatgtcagacgatgaacatgttataaacttttatagacc 60 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1 aaataaacaaaataataataaaatgtcagacgatgaacatgttataaacttttatagacc 60
Query: 61 aaacgagattccatatggcccattttcaaatttctctcgtcatactgttttttataataa 120 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 61 aaacgagattccatatggcccattttcaaatttctctcgtcatactgttttttataataa 120
Query: 121 tgttttggcaaaaacatcagaacacatttttcaggctatgaaattcgaaggcacacaaca 180 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 121 tgttttggcaaaaacatcagaacacatttttcaggctatgaaattcgaaggcacacaaca 180
Query: 181 ttttaatgatgttttaaacaccaaaacccctggtgatagtgctaaaatgggtagagatcg 240 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 181 ttttaatgatgttttaaacaccaaaacccctggtgatagtgctaaaatgggtagagatcg 240
Query: 241 taaacgtccattgagaaaagattgggaaggtgttaaagatgaactcatgtatgaaatttg 300 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 241 taaacgtccattgagaaaagattgggaaggtgttaaagatgaactcatgtatgaaatttg 300
Query: 301 tttagcaaaattctctcaacataaagatattcaaaaaattttattagaaacaggtgacgc 360 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 301 tttagcaaaattctctcaacataaagatattcaaaaaattttattagaaacaggtgacgc 360
Query: 361 cacacttgtcgaacatactggaaatgatagttattggggtgatgg 405 ||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 361 cacacttgtcgaacatactggaaatgatagttattggggtgatgg 405
Lambda K H 1.37 0.711 1.31
Matrix: blastn matrix:1 -3 Number of Sequences: 92845959 Number of Hits to DB: 715,903,832 Number of extensions: 50863806 Number of successful extensions: 5175246 Number of sequences better than 10.0: 327 Length of query: 546 Length of database: 95,242,211,685 Length adjustment: 23 Effective length of query: 523 Effective length of database: 93,106,754,628 Effective search space: 48694832670444 Effective search space used: 48694832670444 X1: 11 (21.8 bits) S2: 22 (44.1 bits)
|
protein update |
2009. 6.23 |
Homology vs Protein |
Query= Contig-U07017-1 (Contig-U07017-1Q) /CSM_Contig/Contig-U07017-1Q.Seq.d (546 letters)
Database: nrp_A 3,204,285 sequences; 1,040,966,779 total letters
Searching..................................................done
Score E Sequences producing significant alignments: (bits) Value
AM746676_3367(AM746676|pid:none) Sorangium cellulosum 'So ce 56'... 139 5e-32 CP000828_3613(CP000828|pid:none) Acaryochloris marina MBIC11017,... 130 2e-29 CP000155_6693(CP000155|pid:none) Hahella chejuensis KCTC 2396, c... 129 5e-29 CP001037_1681(CP001037|pid:none) Nostoc punctiforme PCC 73102, c... 122 8e-27 FM242711_896(FM242711|pid:none) Listeria monocytogenes Clip81459... 121 1e-26 CP001175_1700(CP001175|pid:none) Listeria monocytogenes HCC23, c... 121 1e-26 AE017262_908(AE017262|pid:none) Listeria monocytogenes str. 4b F... 120 2e-26 AM263198_883(AM263198|pid:none) Listeria welshimeri serovar 6b s... 119 4e-26 BX294135_214(BX294135|pid:none) Rhodopirellula baltica SH 1 comp... 114 2e-24 AM398681_2245(AM398681|pid:none) Flavobacterium psychrophilum JI... 110 2e-23 CU928145_819(CU928145|pid:none) Escherichia coli 55989 chromosom... 107 2e-22 CU928160_807(CU928160|pid:none) Escherichia coli IAI1 chromosome... 107 2e-22 (P30176) RecName: Full=Swarming motility protein ybiA; &AP00904... 107 2e-22 CP000946_2785(CP000946|pid:none) Escherichia coli ATCC 8739, com... 107 2e-22 (Q323Z6) RecName: Full=Swarming motility protein ybiA; &CP00003... 105 6e-22 CP000875_353(CP000875|pid:none) Herpetosiphon aurantiacus ATCC 2... 105 6e-22 (Q0T6G3) RecName: Full=Swarming motility protein ybiA; &(Q83LU8... 105 6e-22 CP000377_1897(CP000377|pid:none) Silicibacter sp. TM1040, comple... 100 2e-20 CP000951_1917(CP000951|pid:none) Synechococcus sp. PCC 7002, com... 99 9e-20 CP000753_1667(CP000753|pid:none) Shewanella baltica OS185, compl... 99 9e-20 CP001037_4832(CP001037|pid:none) Nostoc punctiforme PCC 73102, c... 97 2e-19 CP000891_1721(CP000891|pid:none) Shewanella baltica OS195, compl... 96 6e-19 CP000828_2643(CP000828|pid:none) Acaryochloris marina MBIC11017,... 94 2e-18 CP001344_71(CP001344|pid:none) Cyanothece sp. PCC 7425, complete... 92 1e-17 FM954973_1479(FM954973|pid:none) Vibrio splendidus LGP32 chromos... 84 2e-15 EF583821_135(EF583821|pid:none) Bacillus phage 0305phi8-36, comp... 80 3e-14 BA000039_2463(BA000039|pid:none) Thermosynechococcus elongatus B... 80 4e-14 CP000471_1163(CP000471|pid:none) Magnetococcus sp. MC-1, complet... 77 3e-13 CP000744_3014(CP000744|pid:none) Pseudomonas aeruginosa PA7, com... 75 8e-13 CP000790_2284(CP000790|pid:none) Vibrio harveyi ATCC BAA-1116 ch... 75 1e-12 CP000157_157(CP000157|pid:none) Erythrobacter litoralis HTCC2594... 72 7e-12 AP005065_12(AP005065|pid:none) Oryza sativa Japonica Group genom... 71 2e-11 AP008208_1258(AP008208|pid:none) Oryza sativa (japonica cultivar... 71 2e-11 AK065460_1(AK065460|pid:none) Oryza sativa Japonica Group cDNA c... 71 2e-11 CP001287_2027(CP001287|pid:none) Cyanothece sp. PCC 8801, comple... 69 8e-11 AX546684_1(AX546684|pid:none) Sequence 3 from Patent WO02064794. 67 2e-10 AX546718_1(AX546718|pid:none) Sequence 37 from Patent WO02064794. 67 2e-10 CP000860_410(CP000860|pid:none) Candidatus Desulforudis audaxvia... 64 2e-09 CR954207_234(CR954207|pid:none) Ostreococcus tauri strain OTTH05... 61 2e-08 AC159421_18(AC159421|pid:none) Trypanosoma brucei chromosome 7 c... 58 1e-07 AP008955_3603(AP008955|pid:none) Brevibacillus brevis NBRC 10059... 54 2e-06 CP000282_405(CP000282|pid:none) Saccharophagus degradans 2-40, c... 47 3e-04 CP001028_263(CP001028|pid:none) Burkholderia ambifaria MC40-6 pl... 46 5e-04 CU928158_2910(CU928158|pid:none) Escherichia fergusonii ATCC 354... 45 0.002 AC148171_7(AC148171|pid:none) Medicago truncatula clone mth2-30a... 43 0.005 CP000884_5742(CP000884|pid:none) Delftia acidovorans SPH-1, comp... 42 0.008 CP000246_141(CP000246|pid:none) Clostridium perfringens ATCC 131... 42 0.008 AP008955_4542(AP008955|pid:none) Brevibacillus brevis NBRC 10059... 42 0.010 FM180568_3361(FM180568|pid:none) Escherichia coli 0127:H6 E2348/... 42 0.010 CU633453_111(CU633453|pid:none) Podospora anserina genomic DNA c... 42 0.010 CP000438_4884(CP000438|pid:none) Pseudomonas aeruginosa UCBPP-PA... 42 0.010 CP001291_3137(CP001291|pid:none) Cyanothece sp. PCC 7424, comple... 42 0.013 AM494943_11(AM494943|pid:none) Leishmania braziliensis chromosom... 41 0.018 AE014075_855(AE014075|pid:none) Escherichia coli CFT073, complet... 41 0.023 CP001357_582(CP001357|pid:none) Brachyspira hyodysenteriae WA1, ... 41 0.023 AF016432_10(AF016432|pid:none) Caenorhabditis elegans cosmid C07... 40 0.039 CP000744_5156(CP000744|pid:none) Pseudomonas aeruginosa PA7, com... 40 0.039 CT005245_13(CT005245|pid:none) Leishmania major strain Friedlin,... 40 0.051 AM502224_13(AM502224|pid:none) Leishmania infantum chromosome 6. 39 0.067 DQ003638_50(DQ003638|pid:none) Listeria phage A511, complete gen... 39 0.087 CP000247_797(CP000247|pid:none) Escherichia coli 536, complete g... 38 0.15 AC148171_8(AC148171|pid:none) Medicago truncatula clone mth2-30a... 38 0.15 AM235768_312(AM235768|pid:none) Pseudomonas fluorescens SBW25 pl... 36 0.57 CP000524_552(CP000524|pid:none) Bartonella bacilliformis KC583, ... 36 0.74 AY283928_70(AY283928|pid:none) Bacteriophage KVP40, complete gen... 36 0.74 AF068713_1(AF068713|pid:none) Caenorhabditis elegans cosmid T24A... 35 1.6 CR628337_2057(CR628337|pid:none) Legionella pneumophila str. Len... 35 1.6 FJ168556_2(FJ168556|pid:none) Bodo saltans clone fosmid 93E01, c... 35 1.6 BA000036_1697(BA000036|pid:none) Corynebacterium glutamicum ATCC... 34 2.1 AY176327_4(AY176327|pid:none) Staphylococcus phage K, complete g... 34 2.8 AM910991_287(AM910991|pid:none) Plasmodium knowlesi strain H chr... 33 4.8 FJ664185_1(FJ664185|pid:none) Littorina littorea Sarp-3 mRNA. 33 6.3 BA000030_2599(BA000030|pid:none) Streptomyces avermitilis MA-468... 32 8.2
>AM746676_3367(AM746676|pid:none) Sorangium cellulosum 'So ce 56' complete genome. Length = 145
Score = 139 bits (350), Expect = 5e-32 Identities = 72/139 (51%), Positives = 89/139 (64%) Frame = +2
Query: 41 VINFYRPNEIPYGPFSNFSRHTVFYNNVLAKTSEHIFQAMKFEGTQHFNDVLNTKTPGDS 220 VI FYR + +G FSNFSRH V + TSEH FQA KF GT+H + N PG++ Sbjct: 3 VIRFYRSGDA-HGFFSNFSRHPVTLKGKVWPTSEHYFQAQKFPGTEHEEVIRNAPGPGEA 61
Query: 221 AKMGRDRKRPLRKDWEGVKDELMYEICLAKFSQHKDIQKILLETGDATLVEHTXXXXXXX 400 A+MGR R RPLR DWE VKD++M E+ LAKF+QH+D+++ LL+TGDA LVEHT Sbjct: 62 ARMGRQRSRPLRPDWEQVKDDVMREVVLAKFTQHEDLRRALLDTGDAELVEHTANDAYWA 121
Query: 401 XXXXXXXRNQLGKTLMRVR 457 RN LG LM VR Sbjct: 122 DGGDGSGRNMLGVILMEVR 140
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: 733,465,246 Number of extensions: 13971780 Number of successful extensions: 30128 Number of sequences better than 10.0: 73 Number of HSP's gapped: 30093 Number of HSP's successfully gapped: 75 Length of query: 182 Length of database: 1,040,966,779 Length adjustment: 120 Effective length of query: 62 Effective length of database: 656,452,579 Effective search space: 40700059898 Effective search space used: 40700059898 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 |
|
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 |