Contig-U00618-1
Contig ID Contig-U00618-1
Contig update 2001. 8.29
Contig sequence
>Contig-U00618-1 (Contig-U00618-1Q) /CSM_Contig/Contig-U00618-1Q.Seq.d
TATAAAGATGCAATTACACAAAAGTTTAAAAATAAATATCCACCAAAGGC
AATTGCACCAGCAAGTCCAGCTACTCAAGTTCTTTTAGCGCAAACTGCAG
GTTTACCACCACCTTCACCAAAACCAAATCCACCACCACCACAACAGCAA
GAAAACACTGCTACATCATCAATTATATCAACTGTCGAACCAAGACCATA
TGTAAATTCAAATGGTGAAACAGTTGTAAGATCAACTAATGAAATGGATT
TAATTTTACAAGAATCATTGTTAGGTGATGATTTTGATAAAGAACAAGAT
TTGAATATAATTTGGATGGAAGTTGCATTTAGAGCATCAATCGTTTCCAT
TAGGTCTGAGAAAGTTAGATATGACGATATCACCAAAGCCACCGATCAAT
GTGGTAATATTTTAATACATTTGCTATCAATCATTGGTAATTCAGAGACA
ACATCGTTCATGGAGACTGTAAAGAATCAAGAAGCTGTAAACTCAATTCA
AGAACGTGTTAAAAACGTTAAGGAGGGTATCAAACTCCGACTGTTCTCTA
GAATTGATCATTCTGAATTAATTAGATTAGTTGCAGCTTTAATTGGTTC

Gap no gap
Contig length 599
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 8024188
End point 8024787
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U00618
List of clone(s)

est1=AFN638F,1,600
Translated Amino Acid sequence
YKDAITQKFKNKYPPKAIAPASPATQVLLAQTAGLPPPSPKPNPPPPQQQENTATSSIIS
TVEPRPYVNSNGETVVRSTNEMDLILQESLLGDDFDKEQDLNIIWMEVAFRASIVSIRSE
KVRYDDITKATDQCGNILIHLLSIIGNSETTSFMETVKNQEAVNSIQERVKNVKEGIKLR
LFSRIDHSELIRLVAALIG


Translated Amino Acid sequence (All Frames)
Frame A:
YKDAITQKFKNKYPPKAIAPASPATQVLLAQTAGLPPPSPKPNPPPPQQQENTATSSIIS
TVEPRPYVNSNGETVVRSTNEMDLILQESLLGDDFDKEQDLNIIWMEVAFRASIVSIRSE
KVRYDDITKATDQCGNILIHLLSIIGNSETTSFMETVKNQEAVNSIQERVKNVKEGIKLR
LFSRIDHSELIRLVAALIG


Frame B:
ikmqlhkslkinihqrqlhqqvqllkff*rklqvyhhlhqnqihhhhnskktllhhqlyq
lsnqdhm*iqmvkql*dqlmkwi*fyknhc*vmiliknki*i*fgwklhlehqsfplglr
kldmtispkppinvvif*yicyqslviqrqhrswrl*rikkl*tqfknvlktlrrvsnsd
csleliiln*ld*lql*lv


Frame C:
*rcnytkv*k*istkgnctskssysssfsancrftttftktkstttttarkhcyiinyin
crtktickfkw*nsckin**ngfnftriivr**f**rtrfeynldgsci*sinrfh*v*e
s*i*ryhqshrsmw*yfntfainhw*frdnivhgdckesrscklnsrtc*kr*ggyqtpt
vl*n*sf*in*iscsfnwf


own update 2004. 6.21
Homology vs CSM-cDNA
Query= Contig-U00618-1 (Contig-U00618-1Q)
/CSM_Contig/Contig-U00618-1Q.Seq.d
(599 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U00618-1 (Contig-U00618-1Q) /CSM_Contig/Conti... 906 0.0
Contig-U04953-1 (Contig-U04953-1Q) /CSM_Contig/Conti... 38 0.015
Contig-U12964-1 (Contig-U12964-1Q) /CSM_Contig/Conti... 36 0.060
Contig-U03580-1 (Contig-U03580-1Q) /CSM_Contig/Conti... 36 0.060
Contig-U16134-1 (Contig-U16134-1Q) /CSM_Contig/Conti... 34 0.24
Contig-U15046-1 (Contig-U15046-1Q) /CSM_Contig/Conti... 34 0.24
Contig-U10338-1 (Contig-U10338-1Q) /CSM_Contig/Conti... 34 0.24
Contig-U15759-1 (Contig-U15759-1Q) /CSM_Contig/Conti... 32 0.93
Contig-U15349-1 (Contig-U15349-1Q) /CSM_Contig/Conti... 32 0.93
Contig-U15138-1 (Contig-U15138-1Q) /CSM_Contig/Conti... 32 0.93

>Contig-U00618-1 (Contig-U00618-1Q) /CSM_Contig/Contig-U00618-1Q.Seq.d
Length = 599

Score = 906 bits (457), Expect = 0.0
Identities = 457/457 (100%)
Strand = Plus / Plus


Query: 143 aacagcaagaaaacactgctacatcatcaattatatcaactgtcgaaccaagaccatatg 202
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 143 aacagcaagaaaacactgctacatcatcaattatatcaactgtcgaaccaagaccatatg 202


Query: 203 taaattcaaatggtgaaacagttgtaagatcaactaatgaaatggatttaattttacaag 262
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 203 taaattcaaatggtgaaacagttgtaagatcaactaatgaaatggatttaattttacaag 262


Query: 263 aatcattgttaggtgatgattttgataaagaacaagatttgaatataatttggatggaag 322
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 aatcattgttaggtgatgattttgataaagaacaagatttgaatataatttggatggaag 322


Query: 323 ttgcatttagagcatcaatcgtttccattaggtctgagaaagttagatatgacgatatca 382
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 ttgcatttagagcatcaatcgtttccattaggtctgagaaagttagatatgacgatatca 382


Query: 383 ccaaagccaccgatcaatgtggtaatattttaatacatttgctatcaatcattggtaatt 442
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 383 ccaaagccaccgatcaatgtggtaatattttaatacatttgctatcaatcattggtaatt 442


Query: 443 cagagacaacatcgttcatggagactgtaaagaatcaagaagctgtaaactcaattcaag 502
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 443 cagagacaacatcgttcatggagactgtaaagaatcaagaagctgtaaactcaattcaag 502


Query: 503 aacgtgttaaaaacgttaaggagggtatcaaactccgactgttctctagaattgatcatt 562
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 503 aacgtgttaaaaacgttaaggagggtatcaaactccgactgttctctagaattgatcatt 562


Query: 563 ctgaattaattagattagttgcagctttaattggttc 599
|||||||||||||||||||||||||||||||||||||
Sbjct: 563 ctgaattaattagattagttgcagctttaattggttc 599


Score = 206 bits (104), Expect = 3e-53
Identities = 104/104 (100%)
Strand = Plus / Plus


Query: 1 tataaagatgcaattacacaaaagtttaaaaataaatatccaccaaaggcaattgcacca 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 tataaagatgcaattacacaaaagtttaaaaataaatatccaccaaaggcaattgcacca 60


Query: 61 gcaagtccagctactcaagttcttttagcgcaaactgcaggttt 104
||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 gcaagtccagctactcaagttcttttagcgcaaactgcaggttt 104


>Contig-U04953-1 (Contig-U04953-1Q) /CSM_Contig/Contig-U04953-1Q.Seq.d
Length = 683

Score = 38.2 bits (19), Expect = 0.015
Identities = 19/19 (100%)
Strand = Plus / Minus


Query: 21 aaagtttaaaaataaatat 39
|||||||||||||||||||
Sbjct: 320 aaagtttaaaaataaatat 302


>Contig-U12964-1 (Contig-U12964-1Q) /CSM_Contig/Contig-U12964-1Q.Seq.d
Length = 359

Score = 36.2 bits (18), Expect = 0.060
Identities = 18/18 (100%)
Strand = Plus / Minus


Query: 25 tttaaaaataaatatcca 42
||||||||||||||||||
Sbjct: 337 tttaaaaataaatatcca 320


Database: CSM
Posted date: Jun 21, 2004 12:56 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: 11,155
Number of Sequences: 8402
Number of extensions: 11155
Number of successful extensions: 1147
Number of sequences better than 10.0: 117
length of query: 599
length of database: 8,075,542
effective HSP length: 16
effective length of query: 583
effective length of database: 7,941,110
effective search space: 4629667130
effective search space used: 4629667130
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. 4.18
Homology vs DNA
Query= Contig-U00618-1 (Contig-U00618-1Q) /CSM_Contig/Contig-U00618-1Q.Seq.d
(599 letters)

Database: ddbj_A
102,105,510 sequences; 101,790,757,118 total letters

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

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

(AC117081) Dictyostelium discoideum chromosome 2 map 5862124... 906 0.0 2
(BJ328492) Dictyostelium discoideum cDNA clone:dda28k10, 5' ... 906 0.0 2
(CP000770) Candidatus Sulcia muelleri GWSS, complete genome. 40 0.39 7
(AM448680) Vitis vinifera, whole genome shotgun sequence, co... 36 0.77 3
(AC125576) Rattus norvegicus 18 BAC CH230-9F9 (Children's Ho... 42 1.2 4
(CR392341) Zebrafish DNA sequence from clone CH211-222E20 in... 46 1.5 1
(FB062768) Sequence 249676 from Patent WO2007106407. 46 1.5 1
(EA030032) Sequence 17 from patent US 7141418. 46 1.5 1
(DL135063) STREPTOCOCCUS PNEUMONIAE PROTEINS AND NUCLEIC ACIDS. 46 1.5 1
(DL133035) STREPTOCOCCUS PNEUMONIAE PROTEINS AND NUCLEIC ACIDS. 46 1.5 1
(DL072540) Streptococcus pneumoniae Polynucleotides and Sequ... 46 1.5 1
(CS814284) Sequence 1193 from Patent WO2007106407. 46 1.5 1
(CS272295) Sequence 4980 from Patent EP1630230. 46 1.5 1
(CS268264) Sequence 931 from Patent EP1630230. 46 1.5 1
(CQ788926) Sequence 17 from Patent EP1400592. 46 1.5 1
(BD003697) Polynucleotide of Streptococcus pneumoniae and se... 46 1.5 1
(AX571761) Sequence 4980 from Patent WO02077021. 46 1.5 1
(AX567730) Sequence 931 from Patent WO02077021. 46 1.5 1
(AR218785) Sequence 17 from patent US 6420135. 46 1.5 1
(AC185819) Bos taurus clone RP42-179N18, WORKING DRAFT SEQUE... 46 1.5 1
(AC175518) Bos taurus clone CH240-209I21, WORKING DRAFT SEQU... 46 1.5 1
(AC168887) Bos taurus clone CH240-221A24, WORKING DRAFT SEQU... 46 1.5 1
(FM211187) Streptococcus pneumoniae ATCC 700669 complete gen... 46 1.5 1
(EF488098) Streptococcus pneumoniae strain Hu15 PncA, PncB, ... 46 1.5 1
(EF488097) Streptococcus pneumoniae strain F4 SpiB, SpiA, Pn... 46 1.5 1
(EF488096) Streptococcus pneumoniae strain 632 SpiB gene, pa... 46 1.5 1
(EF488095) Streptococcus pneumoniae strain 628 SpiR1, SpiR2,... 46 1.5 1
(EF488093) Streptococcus pneumoniae strain TIGR4 SpiR1, SpiR... 46 1.5 1
(CP000936) Streptococcus pneumoniae Hungary19A-6, complete g... 46 1.5 1
(AJ278419) Streptococcus pneumoniae inducing peptide (i) ope... 46 1.5 1
(AJ276410) Streptococcus pneumoniae blp (bacteriocin like pe... 46 1.5 1
(AE005672) Streptococcus pneumoniae TIGR4, complete genome. 46 1.5 1
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470... 32 2.8 2
(AC145103) Homo sapiens chromosome 5 clone RP11-867J11, WORK... 32 2.9 2
(AC064863) Homo sapiens BAC clone RP11-392M11 from 2, comple... 32 3.0 2
(AC073190) Homo sapiens BAC clone RP11-133P24 from 2, comple... 32 3.1 2
(T33578) EST58320 Human Brain Homo sapiens cDNA 3' end simil... 36 4.8 2
(FM992693) Candida dubliniensis CD36 chromosome 6, complete ... 32 5.5 11
(AC120548) Mus musculus chromosome 17, clone RP23-211H11, co... 44 6.1 1
(AC182722) Populus trichocarpa clone Pop1-92L17, complete se... 44 6.1 1
(AC151126) Bos taurus clone CH240-38K24, WORKING DRAFT SEQUE... 44 6.1 1
(AC097288) Rattus norvegicus clone CH230-28A10, WORKING DRAF... 44 6.1 1
(CU656023) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 6.1 1
(AC230527) Bos taurus clone CH240-506A4, WORKING DRAFT SEQUE... 44 6.1 1
(AC224890) Bos taurus clone CH240-473O2, WORKING DRAFT SEQUE... 44 6.1 1
(FH160227) CHO_OF3158xk21f1.ab1 CHO_OF3 Nicotiana tabacum ge... 44 6.1 1
(EJ998425) 1093025003620 Global-Ocean-Sampling_GS-30-02-01-1... 44 6.1 1
(EJ955277) 1093018968704 Global-Ocean-Sampling_GS-30-02-01-1... 44 6.1 1
(EJ122020) 1092343377328 Global-Ocean-Sampling_GS-27-01-01-1... 44 6.1 1
(EC853654) HDE00003705 Hyperamoeba dachnaya Non-normalized (... 44 6.1 1
(AC091173) Homo sapiens chromosome 8, clone RP11-280G9, comp... 40 6.2 2
(AC170095) Bos taurus clone CH240-261B18, WORKING DRAFT SEQU... 32 6.7 6
(CE513885) tigr-gss-dog-17000327396672 Dog Library Canis lup... 38 7.2 2
(AC006374) Homo sapiens BAC clone RP11-357D2 from 7, complet... 40 9.7 5
(CP000609) Methanococcus maripaludis C5, complete genome. 38 9.7 10
(AR584245) Sequence 2 from patent US 6797466. 38 9.8 3
(AR271570) Sequence 2 from patent US 6503729. 38 9.8 3
(L77118) Methanocaldococcus jannaschii DSM 2661 large extra-... 38 9.8 3

>(AC117081) Dictyostelium discoideum chromosome 2 map 5862124-6045772
strain AX4, complete sequence.
Length = 183648

Score = 906 bits (457), Expect(2) = 0.0
Identities = 457/457 (100%)
Strand = Plus / Plus


Query: 143 aacagcaagaaaacactgctacatcatcaattatatcaactgtcgaaccaagaccatatg 202
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71675 aacagcaagaaaacactgctacatcatcaattatatcaactgtcgaaccaagaccatatg 71734


Query: 203 taaattcaaatggtgaaacagttgtaagatcaactaatgaaatggatttaattttacaag 262
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71735 taaattcaaatggtgaaacagttgtaagatcaactaatgaaatggatttaattttacaag 71794


Query: 263 aatcattgttaggtgatgattttgataaagaacaagatttgaatataatttggatggaag 322
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71795 aatcattgttaggtgatgattttgataaagaacaagatttgaatataatttggatggaag 71854


Query: 323 ttgcatttagagcatcaatcgtttccattaggtctgagaaagttagatatgacgatatca 382
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71855 ttgcatttagagcatcaatcgtttccattaggtctgagaaagttagatatgacgatatca 71914


Query: 383 ccaaagccaccgatcaatgtggtaatattttaatacatttgctatcaatcattggtaatt 442
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71915 ccaaagccaccgatcaatgtggtaatattttaatacatttgctatcaatcattggtaatt 71974


Query: 443 cagagacaacatcgttcatggagactgtaaagaatcaagaagctgtaaactcaattcaag 502
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71975 cagagacaacatcgttcatggagactgtaaagaatcaagaagctgtaaactcaattcaag 72034


Query: 503 aacgtgttaaaaacgttaaggagggtatcaaactccgactgttctctagaattgatcatt 562
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 72035 aacgtgttaaaaacgttaaggagggtatcaaactccgactgttctctagaattgatcatt 72094


Query: 563 ctgaattaattagattagttgcagctttaattggttc 599
|||||||||||||||||||||||||||||||||||||
Sbjct: 72095 ctgaattaattagattagttgcagctttaattggttc 72131

Score = 206 bits (104), Expect(2) = 0.0
Identities = 104/104 (100%)
Strand = Plus / Plus


Query: 1 tataaagatgcaattacacaaaagtttaaaaataaatatccaccaaaggcaattgcacca 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71533 tataaagatgcaattacacaaaagtttaaaaataaatatccaccaaaggcaattgcacca 71592


Query: 61 gcaagtccagctactcaagttcttttagcgcaaactgcaggttt 104
||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71593 gcaagtccagctactcaagttcttttagcgcaaactgcaggttt 71636

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 703,179,872
Number of extensions: 42525019
Number of successful extensions: 3447801
Number of sequences better than 10.0: 59
Length of query: 599
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 576
Effective length of database: 99,442,330,388
Effective search space: 57278782303488
Effective search space used: 57278782303488
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7.13
Homology vs Protein
Query= Contig-U00618-1 (Contig-U00618-1Q) /CSM_Contig/Contig-U00618-1Q.Seq.d
(599 letters)

Database: nrp_B
3,236,559 sequences; 1,051,180,864 total letters

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

Score E
Sequences producing significant alignments: (bits) Value

CR380959_102(CR380959|pid:none) Candida glabrata strain CBS138 c... 37 0.32
AE010300_3169(AE010300|pid:none) Leptospira interrogans serovar ... 35 2.1
AY255699_15(AY255699|pid:none) Listonella anguillarum plasmid pE... 34 2.7
AE014298_1452(AE014298|pid:none) Drosophila melanogaster chromos... 34 3.5
AJ391258_1(AJ391258|pid:none) Neisseria meningitidis DNA for reg... 33 4.6
AE009948_13(AE009948|pid:none) Streptococcus agalactiae 2603V/R,... 33 4.6
AF125564_1(AF125564|pid:none) Neisseria meningitidis NMB putativ... 33 6.0
AF017113_4(AF017113|pid:none) Bacillus subtilis 300-304 degree g... 33 6.0
FM204884_12(FM204884|pid:none) Streptococcus equi subsp. zooepid... 33 6.0
AE002098_797(AE002098|pid:none) Neisseria meningitidis MC58, com... 33 6.0
CP001129_11(CP001129|pid:none) Streptococcus equi subsp. zooepid... 33 6.0
CP000568_217(CP000568|pid:none) Clostridium thermocellum ATCC 27... 33 7.9

>CR380959_102(CR380959|pid:none) Candida glabrata strain CBS138
chromosome M complete sequence.
Length = 856

Score = 37.4 bits (85), Expect = 0.32
Identities = 27/114 (23%), Positives = 51/114 (44%)
Frame = +1

Query: 250 LILQESLLGDDFDKEQDLNIIWMEVAFRASIVSIRSEKVRYDDITKATDQCGNILIHLLS 429
++L E+ D E L + F +S R ++Y D+ LL
Sbjct: 756 VVLDEATNAISADMEDYLFNLLKRYRFNFITISQRPTLIKYHDL-------------LLE 802

Query: 430 IIGNSETTSFMETVKNQEAVNSIQERVKNVKEGIKLRLFSRIDHSELIRLVAAL 591
I G S + ++T+ EA+NSI+ ++ ++E ++ I+ ELIR ++ +
Sbjct: 803 ISGKSSGSWHLQTLGTDEAINSIEHEIEELEEKLENVKLWEIERDELIRKLSVV 856

Lambda K H
0.314 0.130 0.350

Gapped
Lambda K H
0.267 0.0410 0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3236559
Number of Hits to DB: 835,342,446
Number of extensions: 14526078
Number of successful extensions: 36607
Number of sequences better than 10.0: 12
Number of HSP's gapped: 36603
Number of HSP's successfully gapped: 12
Length of query: 199
Length of database: 1,051,180,864
Length adjustment: 122
Effective length of query: 77
Effective length of database: 656,320,666
Effective search space: 50536691282
Effective search space used: 50536691282
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 (21.5 bits)
S2: 30 (16.2 bits)

PSORT

psg: 0.56 gvh: 0.53 alm: 0.38 top: 0.53 tms: 0.00 mit: 0.28 mip: 0.00
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

40.0 %: cytoplasmic
32.0 %: nuclear
16.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: vesicles of secretory system

>> prediction for Contig-U00618-1 is cyt

VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 1
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