Contig-U05486-1
Contig ID Contig-U05486-1
Contig update 2001. 8.30
Contig sequence
>Contig-U05486-1 (Contig-U05486-1Q) /CSM_Contig/Contig-U05486-1Q.Seq.d
TGATGGAGATGAAGTATCAGGAACAACTGGATATGATGAAGTAGATGGAG
AATTCTCAGCTCAATTAAAATTCTATAAAGCTGCCTTAGCTATGGATATT
TTAGCCTTTGTCAATTTATTCTTTTCAGCATGCTACTTGGGTTTTGCATT
ATTCAAAGGAATTTCTCAAGCCAGTCAAACAAAATTTAAGAATTCATTAA
ATGGTGCAACTATATTTTTAATTATTGCTACATTTGTTGTATTAGGTTTA
CCAAAGGCTCGTAGAGAGGATTGTGAAGATTATGCTAATGACAGTAGTTA
TAATTACTCTGGTAGCCAAGTTAAAGATATTTGTAGTATCGGAATTAATA
AAAAATTCATTGGTAGTGAAACTGAAGTTGATGGTTCAAAATATTCATGG
GGACCAACAACTGCTTGGATTGCCATTGTAATTGGTCTTGGTCTCACATT
CTTTAACAATGTCTTTGTTTACATTGCTCCAATTTTCAAAGACTAAAGAA
TTTTTTTTAAAAAAAAAAAAAAAAAACAAAAAAAATAAATTAACAACTTG
CAAAAATAAACAAATATGTTTATTAGATTAAAAAAAAAAAAAA

Gap no gap
Contig length 593
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 4101370
End point 4101871
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U05486
List of clone(s)

est1=SSI793Z,1,594
Translated Amino Acid sequence
DGDEVSGTTGYDEVDGEFSAQLKFYKAALAMDILAFVNLFFSACYLGFALFKGISQASQT
KFKNSLNGATIFLIIATFVVLGLPKARREDCEDYANDSSYNYSGSQVKDICSIGINKKFI
GSETEVDGSKYSWGPTTAWIAIVIGLGLTFFNNVFVYIAPIFKD*riffkkkkkkqkk*i
nnlqk*tnmfirlkkkk


Translated Amino Acid sequence (All Frames)
Frame A:
*wr*sirnnwi**srwrilssikil*sclsygyfslcqfilfsmllgfciiqrnfssqsn
ki*efikwcnyifnycyiccirftkgs*rgl*rlc**q*l*llw*ps*ryl*yrn**kih
w**n*s*wfkifmgtnncldchcnwswshil*qclclhcsnfqrlknff*kkkkktkkin
*qlakinkyvy*ikkkk


Frame B:
DGDEVSGTTGYDEVDGEFSAQLKFYKAALAMDILAFVNLFFSACYLGFALFKGISQASQT
KFKNSLNGATIFLIIATFVVLGLPKARREDCEDYANDSSYNYSGSQVKDICSIGINKKFI
GSETEVDGSKYSWGPTTAWIAIVIGLGLTFFNNVFVYIAPIFKD*riffkkkkkkqkk*i
nnlqk*tnmfirlkkkk


Frame C:
memkyqeqldmmk*mensqln*nsiklp*lwif*plsiysfqhatwvlhyskeflkpvkq
nlrih*mvqlyf*lllhlly*vyqrlverivkimlmtvviitlvaklkifvvseliknsl
vvklklmvqnihgdqqllglpl*lvlvshsltmslftllqfsktkefflkkkkknkknkl
ttcknkqiclld*kkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U05486-1 (Contig-U05486-1Q)
/CSM_Contig/Contig-U05486-1Q.Seq.d
(593 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U05486-1 (Contig-U05486-1Q) /CSM_Contig/Conti... 991 0.0
Contig-U14328-1 (Contig-U14328-1Q) /CSM_Contig/Conti... 36 0.041
Contig-U09894-1 (Contig-U09894-1Q) /CSM_Contig/Conti... 36 0.041
Contig-U06814-1 (Contig-U06814-1Q) /CSM_Contig/Conti... 36 0.041
Contig-U03799-1 (Contig-U03799-1Q) /CSM_Contig/Conti... 36 0.041
Contig-U14600-1 (Contig-U14600-1Q) /CSM_Contig/Conti... 34 0.16
Contig-U13846-1 (Contig-U13846-1Q) /CSM_Contig/Conti... 34 0.16
Contig-U12990-1 (Contig-U12990-1Q) /CSM_Contig/Conti... 34 0.16
Contig-U11366-1 (Contig-U11366-1Q) /CSM_Contig/Conti... 34 0.16
Contig-U04954-1 (Contig-U04954-1Q) /CSM_Contig/Conti... 34 0.16

>Contig-U05486-1 (Contig-U05486-1Q) /CSM_Contig/Contig-U05486-1Q.Seq.d
Length = 593

Score = 991 bits (500), Expect = 0.0
Identities = 500/500 (100%)
Strand = Plus / Plus


Query: 1 tgatggagatgaagtatcaggaacaactggatatgatgaagtagatggagaattctcagc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 tgatggagatgaagtatcaggaacaactggatatgatgaagtagatggagaattctcagc 60


Query: 61 tcaattaaaattctataaagctgccttagctatggatattttagcctttgtcaatttatt 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tcaattaaaattctataaagctgccttagctatggatattttagcctttgtcaatttatt 120


Query: 121 cttttcagcatgctacttgggttttgcattattcaaaggaatttctcaagccagtcaaac 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 cttttcagcatgctacttgggttttgcattattcaaaggaatttctcaagccagtcaaac 180


Query: 181 aaaatttaagaattcattaaatggtgcaactatatttttaattattgctacatttgttgt 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aaaatttaagaattcattaaatggtgcaactatatttttaattattgctacatttgttgt 240


Query: 241 attaggtttaccaaaggctcgtagagaggattgtgaagattatgctaatgacagtagtta 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 attaggtttaccaaaggctcgtagagaggattgtgaagattatgctaatgacagtagtta 300


Query: 301 taattactctggtagccaagttaaagatatttgtagtatcggaattaataaaaaattcat 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 taattactctggtagccaagttaaagatatttgtagtatcggaattaataaaaaattcat 360


Query: 361 tggtagtgaaactgaagttgatggttcaaaatattcatggggaccaacaactgcttggat 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tggtagtgaaactgaagttgatggttcaaaatattcatggggaccaacaactgcttggat 420


Query: 421 tgccattgtaattggtcttggtctcacattctttaacaatgtctttgtttacattgctcc 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 tgccattgtaattggtcttggtctcacattctttaacaatgtctttgtttacattgctcc 480


Query: 481 aattttcaaagactaaagaa 500
||||||||||||||||||||
Sbjct: 481 aattttcaaagactaaagaa 500


Score = 87.7 bits (44), Expect = 1e-17
Identities = 44/44 (100%)
Strand = Plus / Plus


Query: 536 taaattaacaacttgcaaaaataaacaaatatgtttattagatt 579
||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 536 taaattaacaacttgcaaaaataaacaaatatgtttattagatt 579


>Contig-U14328-1 (Contig-U14328-1Q) /CSM_Contig/Contig-U14328-1Q.Seq.d
Length = 579

Score = 36.2 bits (18), Expect = 0.041
Identities = 18/18 (100%)
Strand = Plus / Minus


Query: 177 aaacaaaatttaagaatt 194
||||||||||||||||||
Sbjct: 306 aaacaaaatttaagaatt 289


>Contig-U09894-1 (Contig-U09894-1Q) /CSM_Contig/Contig-U09894-1Q.Seq.d
Length = 1329

Score = 36.2 bits (18), Expect = 0.041
Identities = 18/18 (100%)
Strand = Plus / Minus


Query: 182 aaatttaagaattcatta 199
||||||||||||||||||
Sbjct: 1013 aaatttaagaattcatta 996


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: 7909
Number of Sequences: 6905
Number of extensions: 7909
Number of successful extensions: 883
Number of sequences better than 10.0: 85
length of query: 593
length of database: 5,674,871
effective HSP length: 16
effective length of query: 577
effective length of database: 5,564,391
effective search space: 3210653607
effective search space used: 3210653607
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. 7.28
Homology vs DNA
Query= Contig-U05486-1 (Contig-U05486-1Q) /CSM_Contig/Contig-U05486-1Q.Seq.d
(593 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

(C90315) Dictyostelium discoideum slug cDNA, clone SSI793. 1007 0.0 1
(AC117070) Dictyostelium discoideum chromosome 2 map 2097701... 113 6e-59 4
(EJ181185) 1092344125236 Global-Ocean-Sampling_GS-27-01-01-1... 40 0.25 2
(EK141645) 1095454126639 Global-Ocean-Sampling_GS-31-01-01-1... 38 0.29 2
(CC416911) PUEGJ42TD ZM_0.6_1.0_KB Zea mays genomic clone ZM... 44 0.79 2
(AC191884) Rhesus Macaque BAC CH250-214L19 () complete sequ... 46 1.6 1
(AC148620) Macaca mulatta clone CH250-246C20, WORKING DRAFT ... 46 1.6 1
(EK490945) 1095505084994 Global-Ocean-Sampling_GS-32-01-01-1... 46 1.6 1
(FG516553) 030604KAZB004792HT (KAZB) Actinidia chinensis you... 46 1.6 1
(AC233528) Solanum tuberosum chromosome 1 clone RH173I04, **... 36 1.6 5
(AU087076) Plasmodium falciparum 3D7 cDNA clone from Sugano ... 38 1.9 2
(BM275329) PfESToaa67c04.y1 Plasmodium falciparum 3D7 gameto... 38 2.1 2
(EL501905) 096_PFLAB1-M-P18B.AB1 Blood stage Plasmodium falc... 38 2.3 2
(AC127721) Rattus norvegicus clone CH230-25E10, WORKING DRAF... 42 2.7 3
(EJ522692) 1092955155838 Global-Ocean-Sampling_GS-29-01-01-1... 36 3.0 2
(EJ550470) 1092959438805 Global-Ocean-Sampling_GS-29-01-01-1... 36 3.3 2
(AC162298) Mus musculus chromosome 1, clone RP24-285P15, com... 44 6.2 1
(AC160467) Mus musculus chromosome 1, clone RP23-382C4, comp... 44 6.2 1
(AM479106) Vitis vinifera contig VV79X001572.1, whole genome... 44 6.2 1
(AC189485) Brassica rapa subsp. pekinensis clone KBrB084C18,... 44 6.2 1
(AC187148) Solanum lycopersicum cv. Heinz 1706, chromosome 5... 44 6.2 1
(AC145359) Macropus eugenii clone ME_KBa-138F17, WORKING DRA... 44 6.2 1
(AC110094) Rattus norvegicus clone CH230-4A2, *** SEQUENCING... 44 6.2 1
(AC102500) Mus musculus clone RP24-283O18, WORKING DRAFT SEQ... 44 6.2 1
(AC230565) Bos taurus clone CH240-505F4, WORKING DRAFT SEQUE... 44 6.2 1
(AC214436) Zea mays chromosome 2 clone CH201-298D10; ZMMBBc0... 44 6.2 1
(AC208548) Zea mays chromosome 2 clone CH201-329P18; ZMMBBc0... 44 6.2 1
(AC201909) Zea mays chromosome 6 clone CH201-41L6; ZMMBBc004... 44 6.2 1
(AC166734) Bos taurus clone CH240-54K22, WORKING DRAFT SEQUE... 44 6.2 1
(EJ209260) 1092345402213 Global-Ocean-Sampling_GS-27-01-01-1... 44 6.2 1
(DH597025) Rattus norvegicus DNA, BAC clone: RNB1-121H24, 5'... 44 6.2 1
(DE521322) Bombyx mori genomic DNA, Fosmid clone:GBMFno140_n... 44 6.2 1
(DE171076) Bombyx mori genomic DNA, Fosmid clone:RO0319-O10_F. 44 6.2 1
(CZ144195) OA_BBa0042B16.r OA_BBa Oryza alta genomic clone O... 44 6.2 1
(CR802225) GR0AAA21CC08RM1 INRA BAC Bos taurus genomic clone... 44 6.2 1
(CG195469) PUFKY62TB ZM_0.6_1.0_KB Zea mays genomic clone ZM... 44 6.2 1
(CC435385) PUHSS19TD ZM_0.6_1.0_KB Zea mays genomic clone ZM... 44 6.2 1
(BZ819609) PUFHB79TD ZM_0.6_1.0_KB Zea mays genomic clone ZM... 44 6.2 1
(ES427333) pm_OSU_shoot_CD_2003-04_030A04 Douglas-fir cold d... 44 6.2 1
(AV440348) Arabidopsis thaliana cDNA clone:APD58a10_f, 3' end. 44 6.2 1
(CN639792) 255C10_554085 Douglas-fir cDNA library PmIFG_73-6... 44 6.2 1
(AE017143) Haemophilus ducreyi strain 35000HP complete genome. 44 6.2 1
(AC123271) Rattus norvegicus clone CH230-308H24, *** SEQUENC... 42 7.5 3
(AC211538) Pongo abelii chromosome UNKNOWN clone CH276-54P7,... 36 8.1 4
(EI349589) GM_WBc0097D17.r GM_WBc Glycine max genomic clone ... 34 9.2 2

>(C90315) Dictyostelium discoideum slug cDNA, clone SSI793.
Length = 594

Score = 1007 bits (508), Expect = 0.0
Identities = 508/508 (100%)
Strand = Plus / Plus


Query: 1 tgatggagatgaagtatcaggaacaactggatatgatgaagtagatggagaattctcagc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 tgatggagatgaagtatcaggaacaactggatatgatgaagtagatggagaattctcagc 60


Query: 61 tcaattaaaattctataaagctgccttagctatggatattttagcctttgtcaatttatt 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tcaattaaaattctataaagctgccttagctatggatattttagcctttgtcaatttatt 120


Query: 121 cttttcagcatgctacttgggttttgcattattcaaaggaatttctcaagccagtcaaac 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 cttttcagcatgctacttgggttttgcattattcaaaggaatttctcaagccagtcaaac 180


Query: 181 aaaatttaagaattcattaaatggtgcaactatatttttaattattgctacatttgttgt 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aaaatttaagaattcattaaatggtgcaactatatttttaattattgctacatttgttgt 240


Query: 241 attaggtttaccaaaggctcgtagagaggattgtgaagattatgctaatgacagtagtta 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 attaggtttaccaaaggctcgtagagaggattgtgaagattatgctaatgacagtagtta 300


Query: 301 taattactctggtagccaagttaaagatatttgtagtatcggaattaataaaaaattcat 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 taattactctggtagccaagttaaagatatttgtagtatcggaattaataaaaaattcat 360


Query: 361 tggtagtgaaactgaagttgatggttcaaaatattcatggggaccaacaactgcttggat 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tggtagtgaaactgaagttgatggttcaaaatattcatggggaccaacaactgcttggat 420


Query: 421 tgccattgtaattggtcttggtctcacattctttaacaatgtctttgtttacattgctcc 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 tgccattgtaattggtcttggtctcacattctttaacaatgtctttgtttacattgctcc 480


Query: 481 aattttcaaagactaaagaatttttttt 508
||||||||||||||||||||||||||||
Sbjct: 481 aattttcaaagactaaagaatttttttt 508

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 105743758
Number of Hits to DB: 809,892,142
Number of extensions: 46275825
Number of successful extensions: 3674848
Number of sequences better than 10.0: 46
Length of query: 593
Length of database: 104,622,809,269
Length adjustment: 23
Effective length of query: 570
Effective length of database: 102,190,702,835
Effective search space: 58248700615950
Effective search space used: 58248700615950
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 8. 1
Homology vs Protein
Query= Contig-U05486-1 (Contig-U05486-1Q) /CSM_Contig/Contig-U05486-1Q.Seq.d
(593 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

(Q54KH5) RecName: Full=Uncharacterized transmembrane protein DDB... 41 0.028
AC116977_18(AC116977|pid:none) Dictyostelium discoideum chromoso... 37 0.54
AM419836_1(AM419836|pid:none) Arabidopsis lyrata subsp. petraea ... 34 2.7
AM419869_1(AM419869|pid:none) Arabidopsis lyrata subsp. petraea ... 34 2.7
AM419831_1(AM419831|pid:none) Arabidopsis lyrata subsp. lyrata p... 34 3.5
AM419829_1(AM419829|pid:none) Arabidopsis lyrata subsp. lyrata p... 34 3.5
AM419825_1(AM419825|pid:none) Arabidopsis lyrata subsp. lyrata p... 34 3.5
AM419842_1(AM419842|pid:none) Arabidopsis lyrata subsp. petraea ... 34 3.5
AM419856_1(AM419856|pid:none) Arabidopsis lyrata subsp. petraea ... 34 3.5
AF465936_1(AF465936|pid:none) Brachyspira hyodysenteriae methyl-... 33 4.5
CP000459_2247(CP000459|pid:none) Burkholderia cenocepacia HI2424... 33 5.9

>(Q54KH5) RecName: Full=Uncharacterized transmembrane protein
DDB_G0287341;
Length = 245

Score = 40.8 bits (94), Expect = 0.028
Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 1/84 (1%)
Frame = +2

Query: 224 IATFVVLGLPKARREDC-EDYANDSSYNYSGSQVKDICSIGINKKFIGSETEVDGSKYSW 400
I F+++G+P A R DC ++Y + SQ++ + FIG + + W
Sbjct: 148 ITLFLIIGIPSAVRNDCYKEYGK----KFCNSQLR------YHTSFIG-----ENQVWLW 192

Query: 401 GPTTAWIAIVIGLGLTFFNNVFVY 472
GP+ WI +++ LTFF ++ +
Sbjct: 193 GPSRGWIILMVDTILTFFATIYCW 216

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: 708,671,794
Number of extensions: 11350731
Number of successful extensions: 49584
Number of sequences better than 10.0: 11
Number of HSP's gapped: 49578
Number of HSP's successfully gapped: 11
Length of query: 197
Length of database: 1,061,185,681
Length adjustment: 122
Effective length of query: 75
Effective length of database: 662,435,025
Effective search space: 49682626875
Effective search space used: 49682626875
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: 0.75 gvh: 0.57 alm: 0.25 top: 0.67 tms: 0.20 mit: 0.06 mip: 0.00
nuc: 0.06 erl: 0.00 erm: 0.20 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: 1.00 m_ : 0.00

32.0 %: endoplasmic reticulum
20.0 %: plasma membrane
12.0 %: nuclear
12.0 %: mitochondrial
12.0 %: vacuolar
4.0 %: cytoskeletal
4.0 %: Golgi
4.0 %: cytoplasmic

>> prediction for Contig-U05486-1 is end

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