Contig-U13450-1
Contig ID Contig-U13450-1
Contig update 2002.12.18
Contig sequence
>Contig-U13450-1 (Contig-U13450-1Q) /CSM_Contig/Contig-U13450-1Q.Seq.d
CCCTTCTTTNGTTTACCCGCTTGGGCTTCTTTGGGTCTTGCCATTAGTCC
TGGGATGTTTTTTCCCCCTCAAGATGTTGGTAATCGTGTACTCCCTCTCA
TTCTTTTATTGGTTGGTTGGGGTATAATTTTGGCGTTTTTAGTCGTTTTC
TTTGCTGGTTACCCTAAATTCTTACATGGGCCTTGGGGTTTTTTCCATAG
GGATTTTTAAAATCCCCGTGGTNCTAATTTTCAGGCTGTTCACCAACACC
AACCCCACCCACAGGCTTTTCACCACCAACCCCAACTTCCCCCCCCCCTT
CAACACCCACAACACCCACGACAACCCCCACACCACCGGCAACACCAACC
TCTGCAACAACCACAACAACACCCCCCGATTAATTATAATTTAAAGGATG
ATCCCCCTGATGAATCAATGGGGATGGAAGATTTGAGTGGTGCTAATGTC
CGTCAGTCAATAAAAAAAAAAAACAACAAAAAAAAAAAGTTAAAAAAAGA
AGGCATCATTCGAATGTAGAGTTCAATCAAGCATTAGAATTTAATGATAA
AAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAGAAAAAAAAAAAAG
AAAAAAAAAAAAAAAAA

Gap no gap
Contig length 617
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 1
Link to clone list U13450
List of clone(s)

est1=SSL712Z,1,618
Translated Amino Acid sequence
pffxlpawaslglaispgmffppqdvgnrvlplilllvgwgiilaflvvffagypkflhg
pwgffhrdf*NPRGXNFQAVHQHQPHPQAFHHQPQLPPPLQHPQHPRQPPHHRQHQPLQQ
PQQHPPINYNLKDDPPDESMGMEDLSGANVRQSIKKKNNKKKKLKKEGIIRM*ssikh*n
lmikkkkkkkkekkkrkkkkkkkkk


Translated Amino Acid sequence (All Frames)
Frame A:
pffxlpawaslglaispgmffppqdvgnrvlplilllvgwgiilaflvvffagypkflhg
pwgffhrdf*NPRGXNFQAVHQHQPHPQAFHHQPQLPPPLQHPQHPRQPPHHRQHQPLQQ
PQQHPPINYNLKDDPPDESMGMEDLSGANVRQSIKKKNNKKKKLKKEGIIRM*ssikh*n
lmikkkkkkkkekkkrkkkkkkkkk


Frame B:
psxvyplgllwvlplvlgcffplkmlvivyslsffywlvgv*fwrf*sfsllvtlnsymg
lgvfsigifkipvvlifrlftntnpthrlfttnpnfpppfnthnthdnphttgntnlcnn
hnntprliii*rmiplmnqwgwki*vvlmsvsq*kkkttkkks*kkkasfecrvqssiri
***kkkkkkkkkkkkekkkrkkkkk


Frame C:
llxftrlgffgsch*swdvfspsrcw*sctpshsfigwlgynfgvfsrflcwlp*iltwa
lgffp*gflkspwx*fsgcsptptpptgfspptptspppstpttptttptppatptsatt
tttppd*l*fkg*sp**ingdgrfewc*cpsvnkkkkqqkkkvkkrrhhsnvefnqalef
ndkkkkkkkkrkkkkkkkkekkkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U13450-1 (Contig-U13450-1Q)
/CSM_Contig/Contig-U13450-1Q.Seq.d
(617 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U13450-1 (Contig-U13450-1Q) /CSM_Contig/Conti... 559 e-159
Contig-U11303-1 (Contig-U11303-1Q) /CSM_Contig/Conti... 38 0.011
Contig-U13396-1 (Contig-U13396-1Q) /CSM_Contig/Conti... 34 0.17
Contig-U09751-1 (Contig-U09751-1Q) /CSM_Contig/Conti... 34 0.17
Contig-U09304-1 (Contig-U09304-1Q) /CSM_Contig/Conti... 34 0.17
Contig-U09136-1 (Contig-U09136-1Q) /CSM_Contig/Conti... 32 0.67
Contig-U14754-1 (Contig-U14754-1Q) /CSM_Contig/Conti... 30 2.7
Contig-U13393-1 (Contig-U13393-1Q) /CSM_Contig/Conti... 30 2.7
Contig-U13187-1 (Contig-U13187-1Q) /CSM_Contig/Conti... 30 2.7

>Contig-U13450-1 (Contig-U13450-1Q) /CSM_Contig/Contig-U13450-1Q.Seq.d
Length = 617

Score = 559 bits (282), Expect = e-159
Identities = 288/288 (100%)
Strand = Plus / Plus


Query: 1 cccttctttngtttacccgcttgggcttctttgggtcttgccattagtcctgggatgttt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 cccttctttngtttacccgcttgggcttctttgggtcttgccattagtcctgggatgttt 60


Query: 61 tttccccctcaagatgttggtaatcgtgtactccctctcattcttttattggttggttgg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tttccccctcaagatgttggtaatcgtgtactccctctcattcttttattggttggttgg 120


Query: 121 ggtataattttggcgtttttagtcgttttctttgctggttaccctaaattcttacatggg 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 ggtataattttggcgtttttagtcgttttctttgctggttaccctaaattcttacatggg 180


Query: 181 ccttggggttttttccatagggatttttaaaatccccgtggtnctaattttcaggctgtt 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 ccttggggttttttccatagggatttttaaaatccccgtggtnctaattttcaggctgtt 240


Query: 241 caccaacaccaaccccacccacaggcttttcaccaccaaccccaactt 288
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 caccaacaccaaccccacccacaggcttttcaccaccaaccccaactt 288


Score = 198 bits (100), Expect = 5e-51
Identities = 100/100 (100%)
Strand = Plus / Plus


Query: 362 cacaacaacaccccccgattaattataatttaaaggatgatccccctgatgaatcaatgg 421
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 362 cacaacaacaccccccgattaattataatttaaaggatgatccccctgatgaatcaatgg 421


Query: 422 ggatggaagatttgagtggtgctaatgtccgtcagtcaat 461
||||||||||||||||||||||||||||||||||||||||
Sbjct: 422 ggatggaagatttgagtggtgctaatgtccgtcagtcaat 461


Score = 99.6 bits (50), Expect = 3e-21
Identities = 50/50 (100%)
Strand = Plus / Plus


Query: 499 gaaggcatcattcgaatgtagagttcaatcaagcattagaatttaatgat 548
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 499 gaaggcatcattcgaatgtagagttcaatcaagcattagaatttaatgat 548


>Contig-U11303-1 (Contig-U11303-1Q) /CSM_Contig/Contig-U11303-1Q.Seq.d
Length = 2115

Score = 38.2 bits (19), Expect = 0.011
Identities = 19/19 (100%)
Strand = Plus / Minus


Query: 430 gatttgagtggtgctaatg 448
|||||||||||||||||||
Sbjct: 747 gatttgagtggtgctaatg 729


>Contig-U13396-1 (Contig-U13396-1Q) /CSM_Contig/Contig-U13396-1Q.Seq.d
Length = 262

Score = 34.2 bits (17), Expect = 0.17
Identities = 20/21 (95%)
Strand = Plus / Minus


Query: 239 ttcaccaacaccaaccccacc 259
||||||||||||||| |||||
Sbjct: 234 ttcaccaacaccaacaccacc 214


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: 3731
Number of Sequences: 6905
Number of extensions: 3731
Number of successful extensions: 377
Number of sequences better than 10.0: 25
length of query: 617
length of database: 5,674,871
effective HSP length: 16
effective length of query: 601
effective length of database: 5,564,391
effective search space: 3344198991
effective search space used: 3344198991
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 2008.12.13
Homology vs DNA
Query= Contig-U13450-1 (Contig-U13450-1Q) /CSM_Contig/Contig-U13450-1Q.Seq.d
(617 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

(C93780) Dictyostelium discoideum slug cDNA, clone SSL712. 559 0.0 3
(BJ403055) Dictyostelium discoideum cDNA clone:dds18l06, 3' ... 216 7e-52 1
(BJ347330) Dictyostelium discoideum cDNA clone:dda26d23, 3' ... 190 4e-44 1
(AU071852) Dictyostelium discoideum slug cDNA, clone SSC635. 90 9e-22 2
(AU074447) Dictyostelium discoideum slug cDNA, clone SSK748. 90 5e-20 2
(C93254) Dictyostelium discoideum slug cDNA, clone SSM879. 82 3e-11 1
(FD955072) RS3G471TF RS3(RT) Raphanus sativus cDNA 5', mRNA ... 38 0.005 2
(EY931843) RS1DQ72TF RS1(AR) Raphanus sativus var. oleiformi... 38 0.005 2
(DU060423) 40162 Tomato HindIII BAC Library Solanum lycopers... 48 0.37 1
(EY657531) CS00-C1-100-094-A08-CT.F Sweet orange leaf, green... 48 0.37 1
(CU468704) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 46 1.5 1
(DU938139) 365297 Tomato EcoRI BAC Library Solanum lycopersi... 46 1.5 1
(BU692518) JM01041H07 JM01 Ipomoea batatas cDNA, mRNA sequence. 32 3.9 2
(FD726584) CAAA8104.fwd CAAA Petromyzon marinus Petromyzon m... 32 3.9 2
(BU692405) JM01040C10 JM01 Ipomoea batatas cDNA, mRNA sequence. 32 3.9 2
(DD473479) Detection instruments using polynucleotide mapped... 42 4.2 2
(DQ080040) Manouria emys voucher MVZ 238129 mitochondrion, c... 44 5.8 1
(AC023096) Homo sapiens chromosome 19 clone RP11-81I22 map 1... 44 5.8 1
(AL408276) T3 end of clone AV0AA007E09 of library AV0AA from... 44 5.8 1
(EE823506) 020605ONLN007041HT ONLN Ovis aries cDNA, mRNA seq... 44 5.8 1
(AM761972) Oopsacas minuta EST, 5' end sequence, clone IL0AF... 44 5.8 1
(BA000028) Oceanobacillus iheyensis HTE831 DNA, complete gen... 44 5.8 1

>(C93780) Dictyostelium discoideum slug cDNA, clone SSL712.
Length = 618

Score = 559 bits (282), Expect(3) = 0.0
Identities = 288/288 (100%)
Strand = Plus / Plus


Query: 1 cccttctttngtttacccgcttgggcttctttgggtcttgccattagtcctgggatgttt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 cccttctttngtttacccgcttgggcttctttgggtcttgccattagtcctgggatgttt 60


Query: 61 tttccccctcaagatgttggtaatcgtgtactccctctcattcttttattggttggttgg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tttccccctcaagatgttggtaatcgtgtactccctctcattcttttattggttggttgg 120


Query: 121 ggtataattttggcgtttttagtcgttttctttgctggttaccctaaattcttacatggg 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 ggtataattttggcgtttttagtcgttttctttgctggttaccctaaattcttacatggg 180


Query: 181 ccttggggttttttccatagggatttttaaaatccccgtggtnctaattttcaggctgtt 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 ccttggggttttttccatagggatttttaaaatccccgtggtnctaattttcaggctgtt 240


Query: 241 caccaacaccaaccccacccacaggcttttcaccaccaaccccaactt 288
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 caccaacaccaaccccacccacaggcttttcaccaccaaccccaactt 288

Score = 167 bits (84), Expect(3) = 0.0
Identities = 84/84 (100%)
Strand = Plus / Plus


Query: 378 gattaattataatttaaaggatgatccccctgatgaatcaatggggatggaagatttgag 437
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 378 gattaattataatttaaaggatgatccccctgatgaatcaatggggatggaagatttgag 437


Query: 438 tggtgctaatgtccgtcagtcaat 461
||||||||||||||||||||||||
Sbjct: 438 tggtgctaatgtccgtcagtcaat 461

Score = 99.6 bits (50), Expect(3) = 0.0
Identities = 50/50 (100%)
Strand = Plus / Plus


Query: 499 gaaggcatcattcgaatgtagagttcaatcaagcattagaatttaatgat 548
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 499 gaaggcatcattcgaatgtagagttcaatcaagcattagaatttaatgat 548

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 449,853,441
Number of extensions: 26095204
Number of successful extensions: 2006163
Number of sequences better than 10.0: 23
Length of query: 617
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 594
Effective length of database: 93,106,754,628
Effective search space: 55305412249032
Effective search space used: 55305412249032
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7. 7
Homology vs Protein
Query= Contig-U13450-1 (Contig-U13450-1Q) /CSM_Contig/Contig-U13450-1Q.Seq.d
(617 letters)

Database: nrp_B
3,236,559 sequences; 1,051,180,864 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: 3236559
Number of Hits to DB: 657,151,922
Number of extensions: 10805464
Number of successful extensions: 21117
Number of sequences better than 10.0: 0
Number of HSP's gapped: 21105
Number of HSP's successfully gapped: 0
Length of query: 205
Length of database: 1,051,180,864
Length adjustment: 123
Effective length of query: 82
Effective length of database: 653,084,107
Effective search space: 53552896774
Effective search space used: 53552896774
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: 0.72 gvh: 0.22 alm: 0.67 top: 0.53 tms: 0.00 mit: 0.34 mip: 0.08
nuc: 0.04 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: 0.00 m_ : 1.00

52.0 %: nuclear
24.0 %: cytoplasmic
12.0 %: cytoskeletal
12.0 %: mitochondrial

>> prediction for Contig-U13450-1 is nuc

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