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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U05675-1
Contig ID Contig-U05675-1
Contig update 2001. 8.30
Contig sequence 
>Contig-U05675-1 (Contig-U05675-1Q) /CSM_Contig/Contig-U05675-1Q.Seq.d
GTAAAATTAAATAAAAAAAAACTTTAAAACTATAAAAAAAAAAAATGACT
CTCTTTGAATCCTTAAGATCAATCTCATCTTTTTCAAATGAAAAGAACCA
AAAATTAAACTCAAAAACAAACATTAGTTCAACAACTTTTTCGATTAACT
CTTTTGAAAACAATAACATTTGCTTCAATGGAGGAGTTTGCCCTCGTTAA
CTTAATCGTACATAAACGTGTGCAACGTTCAAAAGATTCGAACTATTAAA
CAAACCATTTATAAATTAATATACTCATAATTTAAAAATTGTATAAATAA
AATTAAAAATTATAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAG
AAAAAAAAAAAAAAAAAAAAAA
Gap no gap
Contig length 422
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 6208855
End point 6209225
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U05675
List of clone(s) 

est1=SSK434F,1,423
Translated Amino Acid sequence 
kik*kktlkl*KKKMTLFESLRSISSFSNEKNQKLNSKTNISSTTFSINSFENNNICFNG
GVCPR*lnrt*tcatfkrfellnkpfin*ythnlkiv*iklkiikkkkkkkkkekkkkkk
kkkkkkkkkkkkrkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
vklnkkkl*nykkkk*lslnp*dqshlfqmkrtkn*tqkqtlvqqlfrltllktitfasm
eefalvnlivhkrvqrskdsny*tnhl*inilii*klyk*n*kl*kkkkkkkkkkkkkkk
kkkkkkkkkkkkkekkkkkk


Frame B:
*n*ikknfktikkkndsl*ilkinliffk*kepkiklknkh*fnnffd*lf*kq*hllqw
rslpslt*syinvcnvqkirtikqtiykliys*fkncinkiknykkkkkkkkkrkkkkkk
kkkkkkkkkkkkkkkkkkkk


Frame C:
kik*kktlkl*KKKMTLFESLRSISSFSNEKNQKLNSKTNISSTTFSINSFENNNICFNG
GVCPR*lnrt*tcatfkrfellnkpfin*ythnlkiv*iklkiikkkkkkkkkekkkkkk
kkkkkkkkkkkkrkkkkkkk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U05675-1 (Contig-U05675-1Q)
/CSM_Contig/Contig-U05675-1Q.Seq.d
         (422 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U05675-1 (Contig-U05675-1Q) /CSM_Contig/Conti...   531  e-151
Contig-U13974-1 (Contig-U13974-1Q) /CSM_Contig/Conti...    38  0.007
Contig-U10938-1 (Contig-U10938-1Q) /CSM_Contig/Conti...    38  0.007
Contig-U01967-1 (Contig-U01967-1Q) /CSM_Contig/Conti...    38  0.007
Contig-U14482-1 (Contig-U14482-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U13223-1 (Contig-U13223-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U12956-1 (Contig-U12956-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U12897-1 (Contig-U12897-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U12515-1 (Contig-U12515-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U12087-1 (Contig-U12087-1Q) /CSM_Contig/Conti...    36  0.029

>Contig-U05675-1 (Contig-U05675-1Q) /CSM_Contig/Contig-U05675-1Q.Seq.d
          Length = 422

 Score =  531 bits (268), Expect = e-151
 Identities = 268/268 (100%)
 Strand = Plus / Plus

                                                                       
Query: 46  tgactctctttgaatccttaagatcaatctcatctttttcaaatgaaaagaaccaaaaat 105
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 46  tgactctctttgaatccttaagatcaatctcatctttttcaaatgaaaagaaccaaaaat 105

                                                                       
Query: 106 taaactcaaaaacaaacattagttcaacaactttttcgattaactcttttgaaaacaata 165
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106 taaactcaaaaacaaacattagttcaacaactttttcgattaactcttttgaaaacaata 165

                                                                       
Query: 166 acatttgcttcaatggaggagtttgccctcgttaacttaatcgtacataaacgtgtgcaa 225
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 166 acatttgcttcaatggaggagtttgccctcgttaacttaatcgtacataaacgtgtgcaa 225

                                                                       
Query: 226 cgttcaaaagattcgaactattaaacaaaccatttataaattaatatactcataatttaa 285
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 226 cgttcaaaagattcgaactattaaacaaaccatttataaattaatatactcataatttaa 285

                                       
Query: 286 aaattgtataaataaaattaaaaattat 313
           ||||||||||||||||||||||||||||
Sbjct: 286 aaattgtataaataaaattaaaaattat 313


>Contig-U13974-1 (Contig-U13974-1Q) /CSM_Contig/Contig-U13974-1Q.Seq.d
          Length = 1782

 Score = 38.2 bits (19), Expect = 0.007
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 295 aaataaaattaaaaattat 313
           |||||||||||||||||||
Sbjct: 74  aaataaaattaaaaattat 92


>Contig-U10938-1 (Contig-U10938-1Q) /CSM_Contig/Contig-U10938-1Q.Seq.d
          Length = 1627

 Score = 38.2 bits (19), Expect = 0.007
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                              
Query: 293 ataaataaaattaaaaatt 311
           |||||||||||||||||||
Sbjct: 283 ataaataaaattaaaaatt 265


  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: 8258
Number of Sequences: 6905
Number of extensions: 8258
Number of successful extensions: 1145
Number of sequences better than 10.0: 480
length of query: 422
length of database: 5,674,871
effective HSP length: 16
effective length of query: 406
effective length of database: 5,564,391
effective search space: 2259142746
effective search space used: 2259142746
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. 8. 2
Homology vs DNA 
Query= Contig-U05675-1 (Contig-U05675-1Q) /CSM_Contig/Contig-U05675-1Q.Seq.d
         (422 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

(AU074344) Dictyostelium discoideum slug cDNA, clone SSK434.      387   e-103  1
(AC116979) Dictyostelium discoideum chromosome 2 map 6445720...   371   1e-98  1
(ER799158) PPTI537TF Solanum tuberosum RHPOTKEY BAC ends Sol...    50   0.070  1
(CU603906) Theobroma cacao, mRNA sequence (KZ0AAR3YO01FM1).        48   0.28   1
(AL671913) Mouse DNA sequence from clone RP23-136P3 on chrom...    46   1.1    1
(AC146548) Medicago truncatula clone mth2-2p3, complete sequ...    46   1.1    1
(AZ968000) 2M0240K09F Mouse 10kb plasmid UUGC2M library Mus ...    46   1.1    1
(CR510626) mth4-22O20RM1 BAC end, cultivar Jemalong A17 of M...    46   1.1    1
(CG939241) MBELH47TF mth2 Medicago truncatula genomic clone ...    46   1.1    1
(CU468881) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    42   3.8    2
(FP236703) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    40   4.0    2
(AP006408) Lotus japonicus genomic DNA, chromosome 4, clone:...    44   4.1    2
(AM470712) Vitis vinifera contig VV78X175476.41, whole genom...    44   4.3    1
(AM439787) Vitis vinifera contig VV78X175476.26, whole genom...    44   4.3    1
(AM425721) Vitis vinifera contig VV78X239882.16, whole genom...    44   4.3    1
(AM424135) Vitis vinifera contig VV78X229737.11, whole genom...    44   4.3    1
(DJ386699) Diagnosis of Diseases Associated with Metastasis.       44   4.3    1
(AX346854) Sequence 1925 from Patent WO0200928.                    44   4.3    1
(AX346058) Sequence 1129 from Patent WO0200928.                    44   4.3    1
(AX281495) Sequence 159 from Patent WO0177376.                     44   4.3    1
(EU735101) Plasmodium berghei strain ANKA profilin gene, com...    44   4.3    1
(AL160391) Human DNA sequence from clone RP11-121J6 on chrom...    44   4.3    1
(AC095874) Rattus norvegicus clone CH230-10M23, *** SEQUENCI...    44   4.3    1
(FP067373) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   4.3    1
(CU657964) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   4.3    1
(AP008093) Lotus japonicus genomic DNA, chromosome 4, clone:...    44   4.3    1
(ET964157) CHO_OF624xp23f1.ab1 CHO_OF Nicotiana tabacum geno...    44   4.3    1
(ER707342) SB_BBc60-C07.R SB_BBc Sorghum bicolor genomic 3',...    44   4.3    1
(EJ882718) 1093018403948 Global-Ocean-Sampling_GS-30-02-01-1...    44   4.3    1
(EJ783086) 1093017293144 Global-Ocean-Sampling_GS-30-02-01-1...    44   4.3    1
(EC361890) IMMUNEF091720E6 POSSUM_01-C-POSSUM-IMMUNE-2KB Tri...    44   4.3    1
(DC231141) Plasmodium berghei strain ANKA cDNA clone:SG02093...    44   4.3    1
(DC215856) Plasmodium berghei strain ANKA cDNA clone:MG01826...    44   4.3    1
(CU595687) Theobroma cacao, mRNA sequence (KZ0AAF10YP03FM1).       44   4.3    1
(BB981282) Plasmodium berghei str. ANKA cDNA clone: OK011533...    44   4.3    1
(BB978860) Plasmodium berghei str. ANKA cDNA clone: OK008917...    44   4.3    1
(BB971993) Plasmodium berghei str. ANKA cDNA clone: OK001686...    44   4.3    1
(FG843982) UCRVU05_CCNN6081_g2 Cowpea IT84S-2049 Mixed Tissu...    44   4.3    1
(CP000048) Borrelia hermsii DAH, complete genome.                  32   7.0    2
(CU929882) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    40   7.4    3
(AC111466) Rattus norvegicus clone CH230-75C14, *** SEQUENCI...    32   7.6    2
(AC146316) Microcebus murinus clone CH257-437M14, complete s...    32   7.7    2
(AC098920) Rattus norvegicus clone CH230-201C23, WORKING DRA...    32   7.7    2
(AC128412) Rattus norvegicus clone CH230-152K9, WORKING DRAF...    32   7.7    2

>(AU074344) Dictyostelium discoideum slug cDNA, clone SSK434.
          Length = 240

 Score =  387 bits (195), Expect = e-103
 Identities = 195/195 (100%)
 Strand = Plus / Plus


Query: 46  tgactctctttgaatccttaagatcaatctcatctttttcaaatgaaaagaaccaaaaat 105
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 46  tgactctctttgaatccttaagatcaatctcatctttttcaaatgaaaagaaccaaaaat 105


Query: 106 taaactcaaaaacaaacattagttcaacaactttttcgattaactcttttgaaaacaata 165
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106 taaactcaaaaacaaacattagttcaacaactttttcgattaactcttttgaaaacaata 165


Query: 166 acatttgcttcaatggaggagtttgccctcgttaacttaatcgtacataaacgtgtgcaa 225
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 166 acatttgcttcaatggaggagtttgccctcgttaacttaatcgtacataaacgtgtgcaa 225


Query: 226 cgttcaaaagattcg 240
           |||||||||||||||
Sbjct: 226 cgttcaaaagattcg 240

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 105743758
Number of Hits to DB: 293,639,404
Number of extensions: 18998004
Number of successful extensions: 1618029
Number of sequences better than 10.0: 45
Length of query: 422
Length of database: 104,622,809,269
Length adjustment: 23
Effective length of query: 399
Effective length of database: 102,190,702,835
Effective search space: 40774090431165
Effective search space used: 40774090431165
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 6.20
Homology vs Protein 
Query= Contig-U05675-1 (Contig-U05675-1Q) /CSM_Contig/Contig-U05675-1Q.Seq.d
         (422 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q75JF4) RecName: Full=Uncharacterized protein DDB_G0276231;  &A...    48   9e-05

>(Q75JF4) RecName: Full=Uncharacterized protein DDB_G0276231;
           &AC116979_99(AC116979|pid:none)
          Length = 51

 Score = 48.1 bits (113), Expect = 9e-05
 Identities = 27/51 (52%), Positives = 27/51 (52%)
 Frame = +3

Query: 45  MTLFESLRSISSFSNEKNQKLXXXXXXXXXXXXXXXXXXXXXXXXGGVCPR 197
           MTLFESLRSISSFSNEKNQKL                        GGVCPR
Sbjct: 1   MTLFESLRSISSFSNEKNQKLNSKTNISSTTFSINSFENNNICFNGGVCPR 51

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: 3204285
Number of Hits to DB: 277,567,921
Number of extensions: 3019725
Number of successful extensions: 4496
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4496
Number of HSP's successfully gapped: 1
Length of query: 140
Length of database: 1,040,966,779
Length adjustment: 104
Effective length of query: 36
Effective length of database: 707,721,139
Effective search space: 25477961004
Effective search space used: 25477961004
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: 29 (15.8 bits)
PSORT 

 psg: 0.72  gvh: 0.44  alm: 0.60  top: 0.53  tms: 0.00  mit: 0.31  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 %: mitochondrial
	 24.0 %: cytoplasmic
	 24.0 %: nuclear
	  8.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for Contig-U05675-1 is mit
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