Contig-U05088-1
Contig ID Contig-U05088-1
Contig update 2001. 8.29
Contig sequence
>Contig-U05088-1 (Contig-U05088-1Q) /CSM_Contig/Contig-U05088-1Q.Seq.d
GAAATATATGTCTACACAATCACCAACTTCAACAAATAATAATATTAGTA
ATATTGCAAATCAATGTAATAAAAGGATTGCAATGGTATGTGCATCCAAT
CAAAATCGTAGTTTGGAAGCACATCATTTATTTGTAAAGAATGGATTTAA
GAATATAAGGTCATTTGGTACATCAGCACATTGTAAATTACCAGGACCAT
CAATTCATCAACCAAATATATTTTCATTTGGTACACCATATCAAGAGATC
TATACATCACTAAAGAATCAAGATCAAGAACTTTACATTAGAAATGGTTT
ATTGAATATGTTGGAACGTAATATCTCTGTTAAACTTGCACCAGAGAAAT
GGCAAGAAGAACAACAATCAAAATTTGAAATCGTCTATACATTTGATCAA
CGTGTTTACGATGCCGTCATTGAAGATCTCTTACAAAGAGATGTATCCTC
CTCACTATTACAACCTGTACATATAATCAATTTACAAGTTAAAGATACTC
ACGAAGAAGCTGTAGGTGGTGCACAACATGCTTTAGAAATTACTTCAATC
ATTGAAAAAACTCTTAATTGGGAAGAGAAATTAGATCAAATTTTAGAAGA
TTTTTATAAACAAACTTCAAGACAATTTTTACATACTTTAATGTTTTATT
AAAAAATAAAAAA

Gap no gap
Contig length 663
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 2036829
End point 2037492
Strand (PLUS/MINUS) PLUS
Number of clones 3
Number of EST 3
Link to clone list U05088
List of clone(s)

est1=SSF186E,1,664
est2=SSF205E,421,661
est3=VSI607F,498,664
Translated Amino Acid sequence
KYMSTQSPTSTNNNISNIANQCNKRIAMVCASNQNRSLEAHHLFVKNGFKNIRSFGTSAH
CKLPGPSIHQPNIFSFGTPYQEIYTSLKNQDQELYIRNGLLNMLERNISVKLAPEKWQEE
QQSKFEIVYTFDQRVYDAVIEDLLQRDVSSSLLQPVHIINLQVKDTHEEAVGGAQHALEI
TSIIEKTLNWEEKLDQILEDFYKQTSRQFLHTLMFY*kik


Translated Amino Acid sequence (All Frames)
Frame A:
eiyvytitnfnk**y**ycksm**kdcngmciqsks*fgstsfickewi*eykviwyist
l*itrtinsstkyifiwytisrdlyitkesrsrtlh*kwfieyvgt*ylc*tctremarr
ttiki*nrlyi*stclrcrh*rsltkrcilltittctynqfts*rysrrscrwcttcfrn
yfnh*kns*lgreirsnfrrfl*tnfktiftyfnvllknkk


Frame B:
KYMSTQSPTSTNNNISNIANQCNKRIAMVCASNQNRSLEAHHLFVKNGFKNIRSFGTSAH
CKLPGPSIHQPNIFSFGTPYQEIYTSLKNQDQELYIRNGLLNMLERNISVKLAPEKWQEE
QQSKFEIVYTFDQRVYDAVIEDLLQRDVSSSLLQPVHIINLQVKDTHEEAVGGAQHALEI
TSIIEKTLNWEEKLDQILEDFYKQTSRQFLHTLMFY*kik


Frame C:
niclhnhqlqqiiilvilqinvikglqwyvhpikivvwkhiiyl*rmdlri*ghlvhqhi
vnyqdhqfinqiyfhlvhhikrsihh*rikiknftlemvy*icwnvisllnlhqrngkkn
nnqnlkssihlinvftmpslkisykemypphyynlyi*siyklkiltkkl*vvhnml*kl
lqslkklligkrn*ikf*kifinklqdnfyil*cfikk*k


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U05088-1 (Contig-U05088-1Q)
/CSM_Contig/Contig-U05088-1Q.Seq.d
(663 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U05088-1 (Contig-U05088-1Q) /CSM_Contig/Conti... 1289 0.0
Contig-U12371-1 (Contig-U12371-1Q) /CSM_Contig/Conti... 38 0.012
Contig-U11177-1 (Contig-U11177-1Q) /CSM_Contig/Conti... 38 0.012
Contig-U01946-1 (Contig-U01946-1Q) /CSM_Contig/Conti... 38 0.012
Contig-U14188-1 (Contig-U14188-1Q) /CSM_Contig/Conti... 36 0.046
Contig-U13145-1 (Contig-U13145-1Q) /CSM_Contig/Conti... 36 0.046
Contig-U11775-1 (Contig-U11775-1Q) /CSM_Contig/Conti... 36 0.046
Contig-U09397-1 (Contig-U09397-1Q) /CSM_Contig/Conti... 36 0.046
Contig-U09285-1 (Contig-U09285-1Q) /CSM_Contig/Conti... 36 0.046
Contig-U06778-1 (Contig-U06778-1Q) /CSM_Contig/Conti... 36 0.046

>Contig-U05088-1 (Contig-U05088-1Q) /CSM_Contig/Contig-U05088-1Q.Seq.d
Length = 663

Score = 1289 bits (650), Expect = 0.0
Identities = 650/650 (100%)
Strand = Plus / Plus


Query: 1 gaaatatatgtctacacaatcaccaacttcaacaaataataatattagtaatattgcaaa 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 gaaatatatgtctacacaatcaccaacttcaacaaataataatattagtaatattgcaaa 60


Query: 61 tcaatgtaataaaaggattgcaatggtatgtgcatccaatcaaaatcgtagtttggaagc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tcaatgtaataaaaggattgcaatggtatgtgcatccaatcaaaatcgtagtttggaagc 120


Query: 121 acatcatttatttgtaaagaatggatttaagaatataaggtcatttggtacatcagcaca 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 acatcatttatttgtaaagaatggatttaagaatataaggtcatttggtacatcagcaca 180


Query: 181 ttgtaaattaccaggaccatcaattcatcaaccaaatatattttcatttggtacaccata 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 ttgtaaattaccaggaccatcaattcatcaaccaaatatattttcatttggtacaccata 240


Query: 241 tcaagagatctatacatcactaaagaatcaagatcaagaactttacattagaaatggttt 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tcaagagatctatacatcactaaagaatcaagatcaagaactttacattagaaatggttt 300


Query: 301 attgaatatgttggaacgtaatatctctgttaaacttgcaccagagaaatggcaagaaga 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 attgaatatgttggaacgtaatatctctgttaaacttgcaccagagaaatggcaagaaga 360


Query: 361 acaacaatcaaaatttgaaatcgtctatacatttgatcaacgtgtttacgatgccgtcat 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 acaacaatcaaaatttgaaatcgtctatacatttgatcaacgtgtttacgatgccgtcat 420


Query: 421 tgaagatctcttacaaagagatgtatcctcctcactattacaacctgtacatataatcaa 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 tgaagatctcttacaaagagatgtatcctcctcactattacaacctgtacatataatcaa 480


Query: 481 tttacaagttaaagatactcacgaagaagctgtaggtggtgcacaacatgctttagaaat 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 tttacaagttaaagatactcacgaagaagctgtaggtggtgcacaacatgctttagaaat 540


Query: 541 tacttcaatcattgaaaaaactcttaattgggaagagaaattagatcaaattttagaaga 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 tacttcaatcattgaaaaaactcttaattgggaagagaaattagatcaaattttagaaga 600


Query: 601 tttttataaacaaacttcaagacaatttttacatactttaatgttttatt 650
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 tttttataaacaaacttcaagacaatttttacatactttaatgttttatt 650


>Contig-U12371-1 (Contig-U12371-1Q) /CSM_Contig/Contig-U12371-1Q.Seq.d
Length = 940

Score = 38.2 bits (19), Expect = 0.012
Identities = 22/23 (95%)
Strand = Plus / Minus


Query: 33 caaataataatattagtaatatt 55
||||||||||||||| |||||||
Sbjct: 35 caaataataatattaataatatt 13


>Contig-U11177-1 (Contig-U11177-1Q) /CSM_Contig/Contig-U11177-1Q.Seq.d
Length = 2387

Score = 38.2 bits (19), Expect = 0.012
Identities = 19/19 (100%)
Strand = Plus / Plus


Query: 589 aattttagaagatttttat 607
|||||||||||||||||||
Sbjct: 145 aattttagaagatttttat 163


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: 11,711
Number of Sequences: 6905
Number of extensions: 11711
Number of successful extensions: 1510
Number of sequences better than 10.0: 274
length of query: 663
length of database: 5,674,871
effective HSP length: 16
effective length of query: 647
effective length of database: 5,564,391
effective search space: 3600160977
effective search space used: 3600160977
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2009. 7.11
Homology vs DNA
Query= Contig-U05088-1 (Contig-U05088-1Q) /CSM_Contig/Contig-U05088-1Q.Seq.d
(663 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

(C92746) Dictyostelium discoideum slug cDNA, clone SSF186. 1289 0.0 1
(AU072825) Dictyostelium discoideum slug cDNA, clone SSF186. 476 e-130 1
(C84742) Dictyostelium discoideum slug cDNA, clone SSF205. 456 e-124 1
(AU268954) Dictyostelium discoideum vegetative cDNA clone:VS... 289 7e-74 1
(CU928051) Brassica rapa subsp. pekinensis clone KBrH059L03,... 46 0.020 5
(ES426361) pm_OSU_shoot_CD_2003-04_015E08 Douglas-fir cold d... 52 0.028 1
(ES420376) pm_OSU_shoot_CA_2003-04_034E07 Douglas-fir cold a... 52 0.028 1
(EJ005937) 1091138298778 Global-Ocean-Sampling_GS-26-01-01-1... 40 0.082 2
(EX007252) HTAB-aac73b12.b1 Heterorhabditis_bacteriophora_HT... 46 0.17 2
(EX916661) HTAB-aae60a08.b1 Heterorhabditis_bacteriophora_HT... 46 0.21 2
(ES412267) HTAB-aaa32f12.b2 Heterorhabditis_bacteriophora_HT... 46 0.23 2
(AC117267) Dictyostelium discoideum chromosome 2 map 5836255... 42 0.28 3
(AL954702) Zebrafish DNA sequence from clone CH211-217A1 in ... 38 0.28 7
(CW354615) fsbb001f017o10f0 Sorghum methylation filtered lib... 48 0.44 1
(CW315592) 104_806_11472445_116_35823_051 Sorghum methylatio... 48 0.44 1
(CW091804) 104_454_10998777_116_33040_047 Sorghum methylatio... 48 0.44 1
(AC135922) Oryza sativa (japonica cultivar-group) chromosome... 44 0.53 4
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470... 36 0.74 8
(AC005139) Plasmodium falciparum chromosome 12, *** SEQUENCI... 34 0.90 10
(AC178545) Strongylocentrotus purpuratus clone R3-3027E21, W... 36 0.92 6
(FF335608) 280460007 Pea aphid whole body normalized full le... 34 1.1 3
(AC116963) Dictyostelium discoideum chromosome 2 map 4657875... 38 1.1 8
(AK174319) Ciona intestinalis cDNA, clone:cicl036c18, full i... 34 1.2 2
(BW370190) Ciona intestinalis cDNA, clone:cima849i16, 5'end,... 34 1.2 2
(BW195408) Ciona intestinalis cDNA, clone:cicl036c18, 5' end... 34 1.2 2
(BW105784) Ciona intestinalis cDNA, clone:rcicl036c18, 3' en... 34 1.2 2
(BW424666) Ciona intestinalis cDNA, clone:cima849i16, 3'end,... 34 1.2 2
(DX545650) GH_MBb0064G06r GH_MBb Gossypium hirsutum genomic ... 38 1.3 2
(BX927243) Zebrafish DNA sequence from clone DKEY-21E2 in li... 46 1.7 1
(BX546453) Zebrafish DNA sequence from clone CH211-203G10 in... 46 1.7 1
(BX005012) Zebrafish DNA sequence from clone DKEY-11P23 in l... 46 1.7 1
(FM992690) Candida dubliniensis CD36 chromosome 3, complete ... 46 1.7 1
(AC160072) Bos taurus clone CH240-82J12, WORKING DRAFT SEQUE... 46 1.7 1
(AC182292) Bos taurus clone CH240-488C17, WORKING DRAFT SEQU... 46 1.7 1
(ER303118) 1092343721729 Global-Ocean-Sampling_GS-34-01-01-1... 46 1.7 1
(EK165234) 1095458048296 Global-Ocean-Sampling_GS-31-01-01-1... 46 1.7 1
(EK065353) 1092960113855 Global-Ocean-Sampling_GS-31-01-01-1... 46 1.7 1
(EK064908) 1092960110399 Global-Ocean-Sampling_GS-31-01-01-1... 46 1.7 1
(EJ146455) 1092343719112 Global-Ocean-Sampling_GS-27-01-01-1... 46 1.7 1
(AC005140) Plasmodium falciparum chromosome 12 clone PFYACB8... 34 2.5 11
(CR762462) Zebrafish DNA sequence from clone DKEYP-8H3 in li... 34 2.5 5
(CR489354) mth2-159J24FM1 BAC end, cultivar Jemalong A17 of ... 34 2.9 2
(CR481173) mth2-193B5RM1 BAC end, cultivar Jemalong A17 of M... 34 2.9 2
(BX571728) Zebrafish DNA sequence from clone DKEY-210O7 in l... 36 3.1 6
(CR487062) mth2-139P23RM1 BAC end, cultivar Jemalong A17 of ... 34 3.2 2
(AP009392) Solanum lycopersicum genomic DNA, chromosome 8, c... 36 3.6 4
(CU633399) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 40 3.9 5
(EX528988) MTGland_A048_2007-07-07/MTGlandA048_F04_011_1 Med... 34 3.9 2
(AC116960) Dictyostelium discoideum chromosome 2 map complem... 38 4.0 6
(EJ866093) 1093018279723 Global-Ocean-Sampling_GS-30-02-01-1... 40 4.0 2
(EK201478) 1095460057885 Global-Ocean-Sampling_GS-31-01-01-1... 42 4.2 2
(EJ877735) 1093018379182 Global-Ocean-Sampling_GS-30-02-01-1... 40 4.3 2
(FH663340) CHO_OF5006xm13r1.ab1 CHO_OF5 Nicotiana tabacum ge... 32 4.5 2
(FH383200) CHO_OF4745xc17r1.ab1 CHO_OF4 Nicotiana tabacum ge... 32 4.5 2
(CZ951060) 261790 Tomato EcoRI BAC Library Solanum lycopersi... 34 4.6 2
(AZ681678) ENTHU46TF Entamoeba histolytica Sheared DNA Entam... 32 4.7 3
(AC173959) Glycine max clone gmw1-27d20, WORKING DRAFT SEQUE... 38 5.0 5
(AP007308) Lotus japonicus genomic DNA, chromosome 5, clone:... 38 5.5 2
(CU062645) Zebrafish DNA sequence from clone CH211-176I7 in ... 44 6.9 1
(BX322568) Zebrafish DNA sequence from clone DKEY-38N4 in li... 44 6.9 1
(GF092347) 24047 Glycine max young leaves DNA Glycine max ST... 44 6.9 1
(AC122218) Mus musculus BAC clone RP23-118J7 from chromosome... 44 6.9 1
(CT834409) Oryza sativa (indica cultivar-group) cDNA clone:O... 44 6.9 1
(BT071561) Picea sitchensis clone WS02924_K02 unknown mRNA. 44 6.9 1
(AP008211) Oryza sativa (japonica cultivar-group) genomic DN... 44 6.9 1
(AK073450) Oryza sativa Japonica Group cDNA clone:J033046F02... 44 6.9 1
(AC130726) Oryza sativa (japonica cultivar-group) chromosome... 44 6.9 1
(CQ779397) Sequence 3 from Patent EP1396544. 44 6.9 1
(AL031010) Human DNA sequence from clone RP3-422F24 on chrom... 44 6.9 1
(AC153741) Ornithorhynchus anatinus clone OA_Bb-10N20, WORKI... 44 6.9 1
(AC126589) Rattus norvegicus clone CH230-121A13, WORKING DRA... 44 6.9 1
(CU466541) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 6.9 1
(CU466503) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 6.9 1
(AC198271) Ornithorhynchus anatinus clone OA_Bb-567M4, WORKI... 44 6.9 1
(FI103450) MUGQ_CH252P483I13Sp6_CH0169_055 CHORI-252 Vervet ... 44 6.9 1
(ET170490) MUGQ_CH252P372E22Sp6_CP700_091 CHORI-252 Vervet M... 44 6.9 1
(EK435233) 1095521028801 Global-Ocean-Sampling_GS-31-01-01-1... 44 6.9 1
(DU094494) 109398 Tomato HindIII BAC Library Solanum lycoper... 44 6.9 1
(CW647243) OA_ABa0186E22.f OA_ABa Oryza australiensis genomi... 44 6.9 1
(CW520405) OP__Ba0023P12.f OP__Ba Oryza punctata genomic clo... 44 6.9 1
(CE414857) tigr-gss-dog-17000362567970 Dog Library Canis lup... 44 6.9 1
(EC294209) BRAINF091457P7 POSSUM_01-POSSUM-C-BRAIN-2KB Trich... 44 6.9 1
(DR594903) WS00842.B21_C19 WS-X-N-A-9 Picea glauca cDNA clon... 44 6.9 1
(DR465341) WS00935.B21_E04 IS-B-N-A-10 Picea engelmannii x P... 44 6.9 1
(DR054328) RTCA1_16_D12.g1_A029 Roots minus calcium Pinus ta... 44 6.9 1
(AU072730) Dictyostelium discoideum slug cDNA, clone SSA714. 44 6.9 1
(CX709282) gmrtDrNS01_05-D_M13R_F08_054.s1 Water stressed 5h... 44 6.9 1
(CX708983) gmrtDrNS01_02-D_T3_C10_076.s0 Water stressed gmrt... 44 6.9 1
(CX703850) gmrtDrNS01_21-B_M13R_C07_059.s1 Water stressed 5h... 44 6.9 1
(CV299268) EST887727 petunia floral post-pollination cDNA li... 44 6.9 1
(CO214124) WS00927.B21_A14 IS-B-N-A-10 Picea engelmannii x P... 44 6.9 1
(CO159719) FLD1_15_H09.b1_A029 Root flooded Pinus taeda cDNA... 44 6.9 1
(CK075113) 68222rsicem_10207.y1 Oryza sativa cv. PA64s panic... 44 6.9 1
(CI330840) Oryza sativa Japonica Group cDNA, clone: J01B3122... 44 6.9 1
(CA937019) sav28a07.y1 Gm-c1048 Glycine max cDNA clone SOYBE... 44 6.9 1
(CA799754) sat62c01.y1 Gm-c1056 Glycine soja cDNA clone SOYB... 44 6.9 1
(BX705839) Xenopus tropicalis EST, clone TTpA003o13 3'. 44 6.9 1
(BU084273) sar37d03.y1 Gm-c1049 Glycine max cDNA clone SOYBE... 44 6.9 1
(BQ252504) san76f01.y1 Gm-c1052 Glycine max cDNA clone SOYBE... 44 6.9 1
(BM887019) sam33c02.y1 Gm-c1068 Glycine max cDNA clone SOYBE... 44 6.9 1
(BM520719) sak97g04.y1 Gm-c1057 Glycine soja cDNA clone SOYB... 44 6.9 1
(BM308304) sak44c09.y1 Gm-c1036 Glycine max cDNA clone SOYBE... 44 6.9 1
(BJ397795) Dictyostelium discoideum cDNA clone:dds47k15, 5' ... 44 6.9 1
(BJ397327) Dictyostelium discoideum cDNA clone:dds45l20, 5' ... 44 6.9 1
(BJ376753) Dictyostelium discoideum cDNA clone:ddc29d23, 3' ... 44 6.9 1
(BJ368787) Dictyostelium discoideum cDNA clone:ddc48h01, 5' ... 44 6.9 1
(BJ368370) Dictyostelium discoideum cDNA clone:ddc46m10, 5' ... 44 6.9 1
(BJ367988) Dictyostelium discoideum cDNA clone:ddc44g05, 5' ... 44 6.9 1
(BJ366352) Dictyostelium discoideum cDNA clone:ddc38m15, 5' ... 44 6.9 1
(BJ365838) Dictyostelium discoideum cDNA clone:ddc36d19, 5' ... 44 6.9 1
(BI701382) sag58b08.y1 Gm-c1082 Glycine max cDNA clone GENOM... 44 6.9 1
(BI498723) sai21g08.y1 Gm-c1053 Glycine max cDNA clone GENOM... 44 6.9 1
(BG316232) sab78b05.y1 Gm-c1032 Glycine max cDNA clone GENOM... 44 6.9 1
(BE347060) sp34d09.y1 Gm-c1043 Glycine max cDNA clone GENOME... 44 6.9 1
(FN006760) Petunia axillaris subsp. axillaris EST, clone dr0... 44 6.9 1
(FN006179) Petunia axillaris subsp. axillaris EST, clone dr0... 44 6.9 1
(FM925431) Brachionus plicatilis EST 5' end, clone sb103P002... 44 6.9 1
(FM921981) Brachionus plicatilis EST 5' end, clone sb103P000... 44 6.9 1
(FM900380) Brachionus plicatilis EST 5' end, clone sb101P001... 44 6.9 1
(FK394222) 454GmaGlobSeed128854 Soybean Seeds Containing Glo... 44 6.9 1
(AW761170) sl64b02.y1 Gm-c1027 Glycine max cDNA clone GENOME... 44 6.9 1
(AW756849) sl27h11.y1 Gm-c1027 Glycine max cDNA clone GENOME... 44 6.9 1
(AW508427) si40g04.y1 Gm-r1030 Glycine max cDNA clone GENOME... 44 6.9 1
(EX442388) GQ04105.B7_H13 GQ041 - Shoot tip - Dormant (Norma... 44 6.9 1
(EX375393) GQ03231.B7_B03 GQ032 - Shoot tip (Normalized libr... 44 6.9 1
(EX375029) GQ03231.B7.1_B03 GQ032 - Shoot tip (Normalized li... 44 6.9 1
(EX314035) GQ02806.SP6_G17 GQ028 - Cambium / phloem scrappin... 44 6.9 1
(EX313684) GQ02806.B7_G17 GQ028 - Cambium / phloem scrapping... 44 6.9 1
(EV276953) GLMCY94TF JCVI-SOY2 Glycine max cDNA 5', mRNA seq... 44 6.9 1
(EV274124) GLMC311TF JCVI-SOY2 Glycine max cDNA 5', mRNA seq... 44 6.9 1
(AW200743) se93a05.y1 Gm-c1027 Glycine max cDNA clone GENOME... 44 6.9 1
(CP001080) Sulfurihydrogenibium sp. YO3AOP1, complete genome. 44 6.9 1
(AM942759) Proteus mirabilis strain HI4320, complete genome. 44 6.9 1
(CT030048) Zebrafish DNA sequence from clone DKEY-73J23 in l... 34 7.5 4
(BX957234) Zebrafish DNA sequence from clone CH211-286L10 in... 38 7.6 3
(AL929502) Zebrafish DNA sequence from clone CH211-69G19 in ... 30 7.7 8
(AY160096) Dictyostelium discoideum nucleotide exchange fact... 38 7.7 2
(CP000040) Bacillus cereus E33L plasmid pE33L466, complete s... 36 7.9 8
(AC223157) Bos taurus clone CH240-427L21, WORKING DRAFT SEQU... 38 8.3 2
(AC067972) Homo sapiens chromosome 4 clone RP11-226G19 map 4... 40 8.5 2
(AC212847) Populus trichocarpa clone POP041-B02, complete se... 36 8.6 3
(CR405714) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 38 9.4 3
(CP000903) Bacillus weihenstephanensis KBAB4, complete genome. 32 9.4 2
(CU074302) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 42 9.6 5
(BX005377) Zebrafish DNA sequence *** SEQUENCING CANCELLED *... 34 9.7 5
(BX005307) Zebrafish DNA sequence from clone DKEY-235F19 in ... 34 9.8 5
(AU270095) Dictyostelium discoideum vegetative cDNA clone:VS... 34 9.9 2

>(C92746) Dictyostelium discoideum slug cDNA, clone SSF186.
Length = 664

Score = 1289 bits (650), Expect = 0.0
Identities = 650/650 (100%)
Strand = Plus / Plus


Query: 1 gaaatatatgtctacacaatcaccaacttcaacaaataataatattagtaatattgcaaa 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 gaaatatatgtctacacaatcaccaacttcaacaaataataatattagtaatattgcaaa 60


Query: 61 tcaatgtaataaaaggattgcaatggtatgtgcatccaatcaaaatcgtagtttggaagc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tcaatgtaataaaaggattgcaatggtatgtgcatccaatcaaaatcgtagtttggaagc 120


Query: 121 acatcatttatttgtaaagaatggatttaagaatataaggtcatttggtacatcagcaca 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 acatcatttatttgtaaagaatggatttaagaatataaggtcatttggtacatcagcaca 180


Query: 181 ttgtaaattaccaggaccatcaattcatcaaccaaatatattttcatttggtacaccata 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 ttgtaaattaccaggaccatcaattcatcaaccaaatatattttcatttggtacaccata 240


Query: 241 tcaagagatctatacatcactaaagaatcaagatcaagaactttacattagaaatggttt 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tcaagagatctatacatcactaaagaatcaagatcaagaactttacattagaaatggttt 300


Query: 301 attgaatatgttggaacgtaatatctctgttaaacttgcaccagagaaatggcaagaaga 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 attgaatatgttggaacgtaatatctctgttaaacttgcaccagagaaatggcaagaaga 360


Query: 361 acaacaatcaaaatttgaaatcgtctatacatttgatcaacgtgtttacgatgccgtcat 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 acaacaatcaaaatttgaaatcgtctatacatttgatcaacgtgtttacgatgccgtcat 420


Query: 421 tgaagatctcttacaaagagatgtatcctcctcactattacaacctgtacatataatcaa 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 tgaagatctcttacaaagagatgtatcctcctcactattacaacctgtacatataatcaa 480


Query: 481 tttacaagttaaagatactcacgaagaagctgtaggtggtgcacaacatgctttagaaat 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 tttacaagttaaagatactcacgaagaagctgtaggtggtgcacaacatgctttagaaat 540


Query: 541 tacttcaatcattgaaaaaactcttaattgggaagagaaattagatcaaattttagaaga 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 tacttcaatcattgaaaaaactcttaattgggaagagaaattagatcaaattttagaaga 600


Query: 601 tttttataaacaaacttcaagacaatttttacatactttaatgttttatt 650
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 tttttataaacaaacttcaagacaatttttacatactttaatgttttatt 650

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 105743758
Number of Hits to DB: 909,135,052
Number of extensions: 55870819
Number of successful extensions: 4717344
Number of sequences better than 10.0: 148
Length of query: 663
Length of database: 104,622,809,269
Length adjustment: 24
Effective length of query: 639
Effective length of database: 102,084,959,077
Effective search space: 65232288850203
Effective search space used: 65232288850203
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7.31
Homology vs Protein
Query= Contig-U05088-1 (Contig-U05088-1Q) /CSM_Contig/Contig-U05088-1Q.Seq.d
(663 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

(Q6PC19) RecName: Full=RNA polymerase II subunit A C-terminal do... 185 9e-46
BT050184_1(BT050184|pid:none) Salmo salar clone ssal-evf-543-314... 184 3e-45
BT043622_1(BT043622|pid:none) Salmo salar clone HM4_3830 Ssu72 R... 184 3e-45
(Q17QI2) RecName: Full=RNA polymerase II subunit A C-terminal do... 183 3e-45
(Q4KLK9) RecName: Full=RNA polymerase II subunit A C-terminal do... 183 5e-45
AK069543_1(AK069543|pid:none) Oryza sativa Japonica Group cDNA c... 182 6e-45
AF277178_1(AF277178|pid:none) Homo sapiens PNAS-120 mRNA, comple... 182 6e-45
(Q6NRQ7) RecName: Full=RNA polymerase II subunit A C-terminal do... 182 6e-45
(Q9CY97) RecName: Full=RNA polymerase II subunit A C-terminal do... 182 8e-45
AE014298_3035(AE014298|pid:none) Drosophila melanogaster chromos... 161 1e-38
BT075839_1(BT075839|pid:none) Caligus rogercresseyi clone crog-e... 159 5e-38
U40030_1(U40030|pid:none) Caenorhabditis elegans cosmid T13C2, c... 156 6e-37
AK297505_1(AK297505|pid:none) Homo sapiens cDNA FLJ60055 complet... 154 2e-36
FJ602784_1(FJ602784|pid:none) Bombyx mori Ssu72 domain protein (... 154 3e-36
AL670236_2(AL670236|pid:none) Mouse DNA sequence from clone RP23... 152 7e-36
(Q5KIT2) RecName: Full=RNA polymerase II subunit A C-terminal do... 147 3e-34
AY558421_1(AY558421|pid:none) Saccharomyces cerevisiae clone FLH... 146 5e-34
(Q6BYP7) RecName: Full=RNA polymerase II subunit A C-terminal do... 146 5e-34
CP000497_32(CP000497|pid:none) Pichia stipitis CBS 6054 chromoso... 146 6e-34
FN392319_1313(FN392319|pid:none) Pichia pastoris GS115 chromosom... 145 1e-33
AK341068_1(AK341068|pid:none) Acyrthosiphon pisum ACYPI005067 mR... 144 2e-33
FM992695_283(FM992695|pid:none) Candida dubliniensis CD36 chromo... 144 2e-33
(Q75E60) RecName: Full=RNA polymerase II subunit A C-terminal do... 139 6e-32
CU928178_655(CU928178|pid:none) Zygosaccharomyces rouxii strain ... 139 6e-32
CP000595_204(CP000595|pid:none) Ostreococcus lucimarinus CCE9901... 132 7e-30
(Q7SFY0) RecName: Full=RNA polymerase II subunit A C-terminal do... 131 2e-29
CR954216_248(CR954216|pid:none) Ostreococcus tauri strain OTTH05... 131 2e-29
(Q4IPC8) RecName: Full=RNA polymerase II subunit A C-terminal do... 130 5e-29
(Q2UPU5) RecName: Full=RNA polymerase II subunit A C-terminal do... 129 8e-29
AK148783_1(AK148783|pid:none) Mus musculus 2 days neonate sympat... 128 2e-28
AX970273_1(AX970273|pid:none) Sequence 1076 from Patent EP1104808. 127 2e-28
AL645728_2(AL645728|pid:none) Human DNA sequence from clone RP5-... 125 1e-27
AM920433_515(AM920433|pid:none) Penicillium chrysogenum Wisconsi... 122 9e-27
AL590446_84(AL590446|pid:none) chromosome VI of strain GB-M1 of ... 118 2e-25
CU633901_292(CU633901|pid:none) Podospora anserina genomic DNA c... 110 4e-23
EF206296_1(EF206296|pid:none) Populus trichocarpa voucher N.A. T... 66 8e-10
AX886030_1(AX886030|pid:none) Sequence 1893 from Patent EP1033401. 64 5e-09
EF206300_1(EF206300|pid:none) Salix caprea f. pendula voucher Va... 50 6e-05
FM992688_1153(FM992688|pid:none) Candida dubliniensis CD36 chrom... 36 0.89
(A6QI55) RecName: Full=Regulatory protein recX; &(A8YY45) RecNa... 35 1.5
CP000806_725(CP000806|pid:none) Cyanothece sp. ATCC 51142 circul... 35 2.6
AE014187_645(AE014187|pid:none) Plasmodium falciparum 3D7 chromo... 35 2.6
AP009484_224(AP009484|pid:none) Macrococcus caseolyticus JCSC540... 35 2.6
(A5IU39) RecName: Full=Regulatory protein recX; &(A6U2X7) RecNa... 34 3.4
AP009179_2019(AP009179|pid:none) Sulfurovum sp. NBC37-1 genomic ... 34 3.4
CP000139_2186(CP000139|pid:none) Bacteroides vulgatus ATCC 8482,... 34 3.4
CP000682_1789(CP000682|pid:none) Metallosphaera sedula DSM 5348,... 34 4.4
(Q9UYV2) RecName: Full=Cysteinyl-tRNA synthetase; EC=6.... 33 5.8
AL844509_207(AL844509|pid:none) Plasmodium falciparum 3D7 chromo... 33 7.5
CP000553_549(CP000553|pid:none) Prochlorococcus marinus str. NAT... 33 7.5
AM485685_1(AM485685|pid:none) Vitis vinifera contig VV78X003491.... 33 7.5
AE009950_1024(AE009950|pid:none) Pyrococcus furiosus DSM 3638, c... 33 7.5
CP001463_170(CP001463|pid:none) Thermococcus sibiricus MM 739, c... 33 7.5
CP000511_2063(CP000511|pid:none) Mycobacterium vanbaalenii PYR-1... 33 9.8
CP000252_754(CP000252|pid:none) Syntrophus aciditrophicus SB, co... 33 9.8
AP003798_15(AP003798|pid:none) Oryza sativa Japonica Group genom... 33 9.8
AM286278_64(AM286278|pid:none) Arthrobacter nitroguajacolicus pA... 33 9.8
(B6YUQ3) RecName: Full=Cysteinyl-tRNA synthetase; EC=6.... 33 9.8

>(Q6PC19) RecName: Full=RNA polymerase II subunit A C-terminal
domain phosphatase SSU72; Short=CTD phosphatase
SSU72; EC=3.1.3.16;
&BC059504_1(BC059504|pid:none)
Length = 194

Score = 185 bits (470), Expect = 9e-46
Identities = 89/192 (46%), Positives = 138/192 (71%)
Frame = +2

Query: 74 RIAMVCASNQNRSLEAHHLFVKNGFKNIRSFGTSAHCKLPGPSIHQPNIFSFGTPYQEIY 253
R+A+VC+SNQNRS+EAH++ K GF ++RSFGT H KLPGP+ +PNI+ F T Y+++Y
Sbjct: 7 RVAVVCSSNQNRSMEAHNILSKRGF-DVRSFGTGTHVKLPGPAPDKPNIYDFKTTYEQMY 65

Query: 254 TSLKNQDQELYIRNGLLNMLERNISVKLAPEKWQEEQQSKFEIVYTFDQRVYDAVIEDLL 433
L +D+ELY +NG+L+ML+RN +K PE++Q + +F++V T ++RVYD V+EDL
Sbjct: 66 NDLVRKDKELYTQNGILHMLDRNKRIKSRPERFQ-SCRDQFDLVITCEERVYDQVLEDLN 124

Query: 434 QRDVSSSLLQPVHIINLQVKDTHEEAVGGAQHALEITSIIEKTLNWEEKLDQILEDFYKQ 613
R+ S QPVH+IN+ ++D HEEA GA E+ I+ T + E ++D++L++F ++
Sbjct: 125 SREQES--FQPVHVINVDIQDNHEEATLGAFLICELCQCIQHTDDMENEMDELLQEFEEK 182

Query: 614 TSRQFLHTLMFY 649
+ R FLH++ FY
Sbjct: 183 SHRPFLHSVCFY 194

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: 967,286,589
Number of extensions: 18122974
Number of successful extensions: 46435
Number of sequences better than 10.0: 58
Number of HSP's gapped: 46217
Number of HSP's successfully gapped: 58
Length of query: 221
Length of database: 1,061,185,681
Length adjustment: 124
Effective length of query: 97
Effective length of database: 655,898,129
Effective search space: 63622118513
Effective search space used: 63622118513
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: 31 (16.5 bits)

PSORT

psg: 0.79 gvh: 0.34 alm: 0.49 top: 0.53 tms: 0.00 mit: 0.48 mip: 0.10
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

72.0 %: mitochondrial
12.0 %: cytoplasmic
8.0 %: nuclear
4.0 %: cytoskeletal
4.0 %: peroxisomal

>> prediction for Contig-U05088-1 is mit

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) 2
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