1006
Id 1006
Contig ID Contig-U03900-1
Contig update 2001. 8.29
Contig sequence >Contig-U03900-1 (Contig-U03900-1Q) /CSM_Contig/Contig-U03900-1Q.Seq.d
ATAACGGTTATTTTTTTTTTTTTAAATAAACAGATAATAGTAATTTATTT
TTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATGTCAACAGAACAACAA
AATATTGAATCAATCACAAACACAAGCACTAACACTAACAACAACAACAC
CAACAATACCAGCAATACCAACAACAACAACACCAACAACACCAACAACA
CCAACAACACCAACAACAACACCAACAACACCACCAATAACAACACCACC
ACCAATAACAATAATAATAATAATAATAATAATAATAATAATA
Gap no gap
Contig length 293
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 3380632
End point 3380424
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U03900
List of clone(s)
est1=SLC136F,1,294
Translated Amino Acid sequence ngyffffk*TDNSNLFLKKKKKKKKKKCQQNNKILNQSQTQALTLTTTTPTIPAIPTTTT
PTTPTTPTTPTTTPTTPPITTPPPITIIIIIIIIIII
Translated Amino Acid sequence (All Frames) Frame A:
itviffflnkqiiviyf*kkkkkkkkknvnrttky*inhkhkh*h*qqqhqqyqqyqqqq
hqqhqqhqqhqqqhqqhhq*qhhhq*q**********


Frame B:
*rlffff*inr***fifekkkkkkkkkmsteqqniesitntstntnnnntnntsntnnnn
tnntnntnntnnntnnttnnntttnnnnnnnnnnnnn


Frame C:
ngyffffk*TDNSNLFLKKKKKKKKKKCQQNNKILNQSQTQALTLTTTTPTIPAIPTTTT
PTTPTTPTTPTTTPTTPPITTPPPITIIIIIIIIIII
own update 2004. 6. 9
Homology vs CSM-cDNA Query= Contig-U03900-1 (Contig-U03900-1Q)
/CSM_Contig/Contig-U03900-1Q.Seq.d
(293 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U03900-1 (Contig-U03900-1Q) /CSM_Contig/Conti... 62 3e-10
Contig-U13284-1 (Contig-U13284-1Q) /CSM_Contig/Conti... 34 0.079
Contig-U11244-1 (Contig-U11244-1Q) /CSM_Contig/Conti... 34 0.079
Contig-U09523-1 (Contig-U09523-1Q) /CSM_Contig/Conti... 34 0.079
Contig-U13905-1 (Contig-U13905-1Q) /CSM_Contig/Conti... 32 0.31
Contig-U12427-1 (Contig-U12427-1Q) /CSM_Contig/Conti... 32 0.31
Contig-U12341-1 (Contig-U12341-1Q) /CSM_Contig/Conti... 32 0.31
Contig-U12119-1 (Contig-U12119-1Q) /CSM_Contig/Conti... 32 0.31
Contig-U10454-1 (Contig-U10454-1Q) /CSM_Contig/Conti... 32 0.31
Contig-U07842-1 (Contig-U07842-1Q) /CSM_Contig/Conti... 32 0.31

>Contig-U03900-1 (Contig-U03900-1Q) /CSM_Contig/Contig-U03900-1Q.Seq.d
Length = 293

Score = 61.9 bits (31), Expect = 3e-10
Identities = 31/31 (100%)
Strand = Plus / Plus


Query: 84 tgtcaacagaacaacaaaatattgaatcaat 114
|||||||||||||||||||||||||||||||
Sbjct: 84 tgtcaacagaacaacaaaatattgaatcaat 114


Score = 60.0 bits (30), Expect = 1e-09
Identities = 30/30 (100%)
Strand = Plus / Plus


Query: 24 aaataaacagataatagtaatttatttttg 53
||||||||||||||||||||||||||||||
Sbjct: 24 aaataaacagataatagtaatttatttttg 53


>Contig-U13284-1 (Contig-U13284-1Q) /CSM_Contig/Contig-U13284-1Q.Seq.d
Length = 561

Score = 34.2 bits (17), Expect = 0.079
Identities = 20/21 (95%)
Strand = Plus / Plus


Query: 24 aaataaacagataatagtaat 44
|||| ||||||||||||||||
Sbjct: 230 aaatcaacagataatagtaat 250


>Contig-U11244-1 (Contig-U11244-1Q) /CSM_Contig/Contig-U11244-1Q.Seq.d
Length = 3820

Score = 34.2 bits (17), Expect = 0.079
Identities = 20/21 (95%)
Strand = Plus / Plus


Query: 93 aacaacaaaatattgaatcaa 113
||||||||||||| |||||||
Sbjct: 1755 aacaacaaaatatagaatcaa 1775


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: 2153
Number of Sequences: 6905
Number of extensions: 2153
Number of successful extensions: 638
Number of sequences better than 10.0: 50
length of query: 293
length of database: 5,674,871
effective HSP length: 15
effective length of query: 278
effective length of database: 5,571,296
effective search space: 1548820288
effective search space used: 1548820288
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2009. 6. 8
Homology vs DNA Query= Contig-U03900-1 (Contig-U03900-1Q) /CSM_Contig/Contig-U03900-1Q.Seq.d
(293 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

(AU060898) Dictyostelium discoideum slug cDNA, clone SLC136. 60 5e-05 1

>(AU060898) Dictyostelium discoideum slug cDNA, clone SLC136.
Length = 294

Score = 60.0 bits (30), Expect = 5e-05
Identities = 30/30 (100%)
Strand = Plus / Plus


Query: 24 aaataaacagataatagtaatttatttttg 53
||||||||||||||||||||||||||||||
Sbjct: 24 aaataaacagataatagtaatttatttttg 53

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 57,448,646
Number of extensions: 4366521
Number of successful extensions: 264391
Number of sequences better than 10.0: 1
Length of query: 293
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 270
Effective length of database: 99,442,330,388
Effective search space: 26849429204760
Effective search space used: 26849429204760
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.29
Homology vs Protein Query= Contig-U03900-1 (Contig-U03900-1Q) /CSM_Contig/Contig-U03900-1Q.Seq.d
(293 letters)

Database: nrp_A
3,268,448 sequences; 1,061,185,681 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: 3268448
Number of Hits to DB: 118,202,865
Number of extensions: 819016
Number of successful extensions: 350
Number of sequences better than 10.0: 0
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 0
Length of query: 97
Length of database: 1,061,185,681
Length adjustment: 66
Effective length of query: 31
Effective length of database: 845,468,113
Effective search space: 26209511503
Effective search space used: 26209511503
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: 28 (15.4 bits)
PSORT
psg: 0.14 gvh: 0.58 alm: 0.16 top: -0.13 tms: 0.07 mit: 0.61 mip: 0.00
nuc: 0.28 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: 1.00 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: 1.00
m3a: 0.00 m3b: 0.00 m_ : 0.00

20.0 %: nuclear
20.0 %: vesicles of secretory system
12.0 %: cytoplasmic
12.0 %: endoplasmic reticulum
12.0 %: plasma membrane
8.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: Golgi
4.0 %: extracellular, including cell wall
4.0 %: vacuolar

>> prediction for Contig-U03900-1 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) 1
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