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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U11690-1
Contig ID Contig-U11690-1
Contig update 2002.12.18
Contig sequence 
>Contig-U11690-1 (Contig-U11690-1Q) /CSM_Contig/Contig-U11690-1Q.Seq.d
TGTTGGCCTACTGGATTTAAATTGAATTCAATCACGTTAACATTCTCTGG
CTAATATAATTACAAAGAAAACAAATTATACTATTAAAGAAAAGTGCCTT
TTAAAATTTTAAAAATTATTTAAGATAAAAAAAAAAAAAATTAAAAAAAA
AANNNNNNNNN----------NNNNNNNNNNGATGNAGATATCNTTCAAA
GATTTAATCCNATTAGNNTGGTCNTTTCNATNAAACCNAAATNGGATTNN
TCNATTAGGCCATATNTTTTNAAANNATNTGATTTCNTTNNAAATNTTGN
AGNCATGNCNGATTNTTTNTATCNATTTTAATTTTTAGNAAAAATTATTC
NTTCNTNTCTAATTTATAATA
Gap gap included
Contig length 361
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 2
Link to clone list U11690
List of clone(s) 

est1=CHE310F,1,152
est2=CHE310Z,153,343
Translated Amino Acid sequence 
vglldln*iqsr*hslaniitkktnytikekcllkf*KLFKIKKKKIKKKXXX---

---XXXMXISFKDLIXLXWSFXXNXNXIXXLGHXFXXXXISXXXLXXXXIXXIXFNF*xk
lfxxx*fii
Translated Amino Acid sequence (All Frames) 
Frame A:
cwptgfklnsitltfsg*ynykenklyy*rkvpfkilkii*dkkkkn*kkxxx---

---xxxxxryxski*sx*xgxfxxtxxgxxx*aixfxxx*fxxkxxxhxxxfxsilifxk
nysfxsnl*

Frame B:
vglldln*iqsr*hslaniitkktnytikekcllkf*KLFKIKKKKIKKKXXX---

---xxxdxdixqrfnpixxvxsxkpkxdxsirpyxxkxxdfxxnxxxmxdxxyxf*flxk
iixsxliyn

Frame C:
laywi*iefnhvnilwli*lqrkqiillkksaf*nfknylr*kkkklkkkxxx---

---XXXMXISFKDLIXLXWSFXXNXNXIXXLGHXFXXXXISXXXLXXXXIXXIXFNF*xk
lfxxx*fii
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U11690-1 (Contig-U11690-1Q)
/CSM_Contig/Contig-U11690-1Q.Seq.d
         (371 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U11690-1 (Contig-U11690-1Q) /CSM_Contig/Conti...   250  9e-67
Contig-U10361-1 (Contig-U10361-1Q) /CSM_Contig/Conti...    40  0.002
Contig-U12516-1 (Contig-U12516-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U12044-1 (Contig-U12044-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U11642-1 (Contig-U11642-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U10950-1 (Contig-U10950-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U10472-1 (Contig-U10472-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U14435-1 (Contig-U14435-1Q) /CSM_Contig/Conti...    36  0.025
Contig-U14188-1 (Contig-U14188-1Q) /CSM_Contig/Conti...    36  0.025
Contig-U14174-1 (Contig-U14174-1Q) /CSM_Contig/Conti...    36  0.025

>Contig-U11690-1 (Contig-U11690-1Q) /CSM_Contig/Contig-U11690-1Q.Seq.d
          Length = 371

 Score =  250 bits (126), Expect = 9e-67
 Identities = 126/126 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   tgttggcctactggatttaaattgaattcaatcacgttaacattctctggctaatataat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   tgttggcctactggatttaaattgaattcaatcacgttaacattctctggctaatataat 60

                                                                       
Query: 61  tacaaagaaaacaaattatactattaaagaaaagtgccttttaaaattttaaaaattatt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tacaaagaaaacaaattatactattaaagaaaagtgccttttaaaattttaaaaattatt 120

                 
Query: 121 taagat 126
           ||||||
Sbjct: 121 taagat 126


 Score =  180 bits (91), Expect = 7e-46
 Identities = 190/190 (100%)
 Strand = Plus / Plus

                                                                       
Query: 182 gatgnagatatcnttcaaagatttaatccnattagnntggtcntttcnatnaaaccnaaa 241
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 182 gatgnagatatcnttcaaagatttaatccnattagnntggtcntttcnatnaaaccnaaa 241

                                                                       
Query: 242 tnggattnntcnattaggccatatnttttnaaannatntgatttcnttnnaaatnttgna 301
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 242 tnggattnntcnattaggccatatnttttnaaannatntgatttcnttnnaaatnttgna 301

                                                                       
Query: 302 gncatgncngattntttntatcnattttaatttttagnaaaaattattcnttcntntcta 361
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 302 gncatgncngattntttntatcnattttaatttttagnaaaaattattcnttcntntcta 361

                     
Query: 362 atttataata 371
           ||||||||||
Sbjct: 362 atttataata 371


 Score = 32.2 bits (16), Expect = 0.40
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                           
Query: 99  ttttaaaattttaaaa 114
           ||||||||||||||||
Sbjct: 114 ttttaaaattttaaaa 99


>Contig-U10361-1 (Contig-U10361-1Q) /CSM_Contig/Contig-U10361-1Q.Seq.d
          Length = 1122

 Score = 40.1 bits (20), Expect = 0.002
 Identities = 23/24 (95%)
 Strand = Plus / Plus

                                  
Query: 1  tgttggcctactggatttaaattg 24
          ||||||||||||||||||| ||||
Sbjct: 4  tgttggcctactggatttacattg 27


>Contig-U12516-1 (Contig-U12516-1Q) /CSM_Contig/Contig-U12516-1Q.Seq.d
          Length = 736

 Score = 38.2 bits (19), Expect = 0.006
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                             
Query: 3  ttggcctactggatttaaa 21
          |||||||||||||||||||
Sbjct: 1  ttggcctactggatttaaa 19


  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: 7319
Number of Sequences: 6905
Number of extensions: 7319
Number of successful extensions: 1349
Number of sequences better than 10.0: 675
length of query: 371
length of database: 5,674,871
effective HSP length: 16
effective length of query: 355
effective length of database: 5,564,391
effective search space: 1975358805
effective search space used: 1975358805
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 2008.11.25
Homology vs DNA 
Query= Contig-U11690-1 (Contig-U11690-1Q) /CSM_Contig/Contig-U11690-1Q.Seq.d
         (371 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

(BJ376812) Dictyostelium discoideum cDNA clone:ddc30d03, 3' ...   178   9e-41  1
(BJ364116) Dictyostelium discoideum cDNA clone:ddc30d03, 5' ...   111   2e-20  1
(BJ364159) Dictyostelium discoideum cDNA clone:ddc30f07, 5' ...    46   0.87   1
(BJ364007) Dictyostelium discoideum cDNA clone:ddc29b16, 5' ...    46   0.87   1
(BJ362923) Dictyostelium discoideum cDNA clone:ddc24h06, 5' ...    46   0.87   1
(CJ451006) Macaca fascicularis mRNA, clone: QflA-16592, 5' e...    44   3.4    1
(BJ388057) Dictyostelium discoideum cDNA clone:dds7m15, 5' e...    44   3.4    1
(BJ327726) Dictyostelium discoideum cDNA clone:dda21d17, 5' ...    44   3.4    1

>(BJ376812) Dictyostelium discoideum cDNA clone:ddc30d03, 3' end,
           single read.
          Length = 191

 Score =  178 bits (90), Expect = 9e-41
 Identities = 189/189 (100%)
 Strand = Plus / Minus


Query: 183 atgnagatatcnttcaaagatttaatccnattagnntggtcntttcnatnaaaccnaaat 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 190 atgnagatatcnttcaaagatttaatccnattagnntggtcntttcnatnaaaccnaaat 131


Query: 243 nggattnntcnattaggccatatnttttnaaannatntgatttcnttnnaaatnttgnag 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130 nggattnntcnattaggccatatnttttnaaannatntgatttcnttnnaaatnttgnag 71


Query: 303 ncatgncngattntttntatcnattttaatttttagnaaaaattattcnttcntntctaa 362
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 70  ncatgncngattntttntatcnattttaatttttagnaaaaattattcnttcntntctaa 11


Query: 363 tttataata 371
           |||||||||
Sbjct: 10  tttataata 2

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 124,474,505
Number of extensions: 8725768
Number of successful extensions: 502776
Number of sequences better than 10.0: 8
Length of query: 371
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 348
Effective length of database: 93,106,754,628
Effective search space: 32401150610544
Effective search space used: 32401150610544
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 6.30
Homology vs Protein 
Query= Contig-U11690-1 (Contig-U11690-1Q) /CSM_Contig/Contig-U11690-1Q.Seq.d
         (371 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: 212,787,441
Number of extensions: 9343460
Number of successful extensions: 2308
Number of sequences better than 10.0: 0
Number of HSP's gapped: 2308
Number of HSP's successfully gapped: 0
Length of query: 123
Length of database: 1,051,180,864
Length adjustment: 89
Effective length of query: 34
Effective length of database: 763,127,113
Effective search space: 25946321842
Effective search space used: 25946321842
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: 0.57  gvh: 0.54  alm: 0.48  top: 0.53  tms: 0.00  mit: 0.29  mip: 0.00
 nuc: 0.04  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 

	 36.0 %: cytoplasmic
	 28.0 %: nuclear
	 24.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U11690-1 is cyt
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) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0