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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-U10401-1
Contig ID Contig-U10401-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U10401-1 (Contig-U10401-1Q) /CSM_Contig/Contig-U10401-1Q.Seq.d
NNNNNNNNNNTGNAATTAAATTTATAAATNNAAANATTGATNAATTAGGN
AGTAAGGCNAATTCANCAGTTAAAAGTTTAGGATTATTGNCNAAAAANAN
ATTTTCNATCGAAATGGATTNNCGNGNAANCGANGCGATTAATTTNNTAA
ATTTTNAACNAATTNCAAANTTGGCNGNAATTGNTAAANATGGTNAANTA
ANTGGAACTTTNTCNCCNTCAGATTTAANAAANCTANCAATNTANTCCNT
CNATCNATGTTANGAACCNATTAGNGAATTCNTTNAATTCCCCCCCCAAG
ATCNATTGANTTCAGNTAGGCCNTNNTCNNCNTTAAAAGCNACAANTANA
AAATTT
Gap no gap
Contig length 356
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 U10401
List of clone(s) 

est1=VFH767Z,1,347
Translated Amino Acid sequence 
XXXXIKFINXXIDXLGSKANSXVKSLGLLXKXXFSIEMDXRXXXAINXXNFXXIXXLAXI
XKXGXXXGTXSPSDLXXLXXXSXXXCXEPIXEFXXFPPQDXLXSXRPXSXLKATXXKF
Translated Amino Acid sequence (All Frames) 
Frame A:
xxxxxlnl*xxxlxn*xvrxixqlkv*dyxxkxxfxskwixxxxxrlix*ixnxxqxwxx
lxxmvx*xelxxxqi*xxxqxxpsixvxnxlxnsxnsppkix*xqxgxxxx*kxqxxn


Frame B:
xxxxn*iykxkx*xirx*gxfxs*kfriixxkxifxrngxxxxrxd*fxkfxtnxkxgxn
x*xwxxxwnfxxxrfxkxxnxxxxsmlxtx*xixxippprsixfx*axxxxksxxxki


Frame C:
XXXXIKFINXXIDXLGSKANSXVKSLGLLXKXXFSIEMDXRXXXAINXXNFXXIXXLAXI
XKXGXXXGTXSPSDLXXLXXXSXXXCXEPIXEFXXFPPQDXLXSXRPXSXLKATXXKF
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U10401-1 (Contig-U10401-1Q)
/CSM_Contig/Contig-U10401-1Q.Seq.d
         (356 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U10401-1 (Contig-U10401-1Q) /CSM_Contig/Conti...   281  2e-76
Contig-U14067-1 (Contig-U14067-1Q) /CSM_Contig/Conti...   220  8e-58
Contig-U14542-1 (Contig-U14542-1Q) /CSM_Contig/Conti...    32  0.38
Contig-U06430-1 (Contig-U06430-1Q) /CSM_Contig/Conti...    32  0.38
Contig-U14711-1 (Contig-U14711-1Q) /CSM_Contig/Conti...    30  1.5
Contig-U14497-1 (Contig-U14497-1Q) /CSM_Contig/Conti...    30  1.5
Contig-U14009-1 (Contig-U14009-1Q) /CSM_Contig/Conti...    30  1.5
Contig-U11723-1 (Contig-U11723-1Q) /CSM_Contig/Conti...    30  1.5
Contig-U11539-1 (Contig-U11539-1Q) /CSM_Contig/Conti...    30  1.5
Contig-U06053-1 (Contig-U06053-1Q) /CSM_Contig/Conti...    30  1.5

>Contig-U10401-1 (Contig-U10401-1Q) /CSM_Contig/Contig-U10401-1Q.Seq.d
          Length = 356

 Score =  281 bits (142), Expect = 2e-76
 Identities = 335/343 (97%)
 Strand = Plus / Plus

                                                                       
Query: 14  aattaaatttataaatnnaaanattgatnaattaggnagtaaggcnaattcancagttaa 73
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14  aattaaatttataaatnnaaanattgatnaattaggnagtaaggcnaattcancagttaa 73

                                                                       
Query: 74  aagtttaggattattgncnaaaaananattttcnatcgaaatggattnncgngnaancga 133
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 74  aagtttaggattattgncnaaaaananattttcnatcgaaatggattnncgngnaancga 133

                                                                       
Query: 134 ngcgattaatttnntaaattttnaacnaattncaaanttggcngnaattgntaaanatgg 193
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 134 ngcgattaatttnntaaattttnaacnaattncaaanttggcngnaattgntaaanatgg 193

                                                                       
Query: 194 tnaantaantggaactttntcnccntcagatttaanaaanctancaatntantccntcna 253
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 194 tnaantaantggaactttntcnccntcagatttaanaaanctancaatntantccntcna 253

                                                                       
Query: 254 tcnatgttangaaccnattagngaattcnttnaattnnnnnnnnaagatcnattganttc 313
           ||||||||||||||||||||||||||||||||||||        ||||||||||||||||
Sbjct: 254 tcnatgttangaaccnattagngaattcnttnaattccccccccaagatcnattganttc 313

                                                      
Query: 314 agntaggccntnntcnncnttaaaagcnacaantanaaaattt 356
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 314 agntaggccntnntcnncnttaaaagcnacaantanaaaattt 356


>Contig-U14067-1 (Contig-U14067-1Q) /CSM_Contig/Contig-U14067-1Q.Seq.d
          Length = 1279

 Score =  220 bits (111), Expect = 8e-58
 Identities = 223/276 (80%)
 Strand = Plus / Plus

                                                                       
Query: 14  aattaaatttataaatnnaaanattgatnaattaggnagtaaggcnaattcancagttaa 73
           ||||||||||||||||  ||| |||||| ||||||| |||||||| |||||| |||||| 
Sbjct: 693 aattaaatttataaatgaaaatattgatgaattaggtagtaaggcaaattcatcagttag 752

                                                                       
Query: 74  aagtttaggattattgncnaaaaananattttcnatcgaaatggattnncgngnaancga 133
           |||||||||||||||| | ||| | | |||||| ||||| |||||||  || | || |||
Sbjct: 753 aagtttaggattattgtcaaaagagatattttcaatcgatatggattcacgtgtaatcga 812

                                                                       
Query: 134 ngcgattaatttnntaaattttnaacnaattncaaanttggcngnaattgntaaanatgg 193
            |||||||||||  |||||| | ||| |||| || | ||||| | ||||| |||| ||||
Sbjct: 813 tgcgattaatttattaaattctgaacaaattacagagttggctgtaattgataaagatgg 872

                                                                       
Query: 194 tnaantaantggaactttntcnccntcagatttaanaaanctancaatntantccntcna 253
           | || ||| ||||||||| || || |||||||||| ||| ||| |||| || ||| || |
Sbjct: 873 taaattaattggaactttctctccatcagatttaagaaagctatcaatctattccttcaa 932

                                               
Query: 254 tcnatgttangaaccnattagngaattcnttnaatt 289
           || |||||| ||||| |||||  ||||| || ||||
Sbjct: 933 tcaatgttatgaaccaattagtaaattcattaaatt 968


>Contig-U14542-1 (Contig-U14542-1Q) /CSM_Contig/Contig-U14542-1Q.Seq.d
          Length = 126

 Score = 32.2 bits (16), Expect = 0.38
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                          
Query: 14 aattaaatttataaat 29
          ||||||||||||||||
Sbjct: 64 aattaaatttataaat 79


  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: 924
Number of Sequences: 6905
Number of extensions: 924
Number of successful extensions: 77
Number of sequences better than 10.0: 25
length of query: 356
length of database: 5,674,871
effective HSP length: 16
effective length of query: 340
effective length of database: 5,564,391
effective search space: 1891892940
effective search space used: 1891892940
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 2008.11.20
Homology vs DNA 
Query= Contig-U10401-1 (Contig-U10401-1Q) /CSM_Contig/Contig-U10401-1Q.Seq.d
         (356 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

(BJ434333) Dictyostelium discoideum cDNA clone:ddv16f17, 3' ...   268   1e-67  1
(BJ436011) Dictyostelium discoideum cDNA clone:ddv29o10, 3' ...   220   3e-53  1
(BJ346717) Dictyostelium discoideum cDNA clone:dda24e24, 3' ...   218   1e-52  1

>(BJ434333) Dictyostelium discoideum cDNA clone:ddv16f17, 3' end,
           single read.
          Length = 347

 Score =  268 bits (135), Expect = 1e-67
 Identities = 276/276 (100%)
 Strand = Plus / Minus


Query: 14  aattaaatttataaatnnaaanattgatnaattaggnagtaaggcnaattcancagttaa 73
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 344 aattaaatttataaatnnaaanattgatnaattaggnagtaaggcnaattcancagttaa 285


Query: 74  aagtttaggattattgncnaaaaananattttcnatcgaaatggattnncgngnaancga 133
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 284 aagtttaggattattgncnaaaaananattttcnatcgaaatggattnncgngnaancga 225


Query: 134 ngcgattaatttnntaaattttnaacnaattncaaanttggcngnaattgntaaanatgg 193
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 224 ngcgattaatttnntaaattttnaacnaattncaaanttggcngnaattgntaaanatgg 165


Query: 194 tnaantaantggaactttntcnccntcagatttaanaaanctancaatntantccntcna 253
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 164 tnaantaantggaactttntcnccntcagatttaanaaanctancaatntantccntcna 105


Query: 254 tcnatgttangaaccnattagngaattcnttnaatt 289
           ||||||||||||||||||||||||||||||||||||
Sbjct: 104 tcnatgttangaaccnattagngaattcnttnaatt 69

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 66,036,103
Number of extensions: 3971473
Number of successful extensions: 189404
Number of sequences better than 10.0: 3
Length of query: 356
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 333
Effective length of database: 93,106,754,628
Effective search space: 31004549291124
Effective search space used: 31004549291124
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 6.27
Homology vs Protein 
Query= Contig-U10401-1 (Contig-U10401-1Q) /CSM_Contig/Contig-U10401-1Q.Seq.d
         (356 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 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: 3204285
Number of Hits to DB: 168,569,768
Number of extensions: 8051672
Number of successful extensions: 96
Number of sequences better than 10.0: 0
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 0
Length of query: 118
Length of database: 1,040,966,779
Length adjustment: 84
Effective length of query: 34
Effective length of database: 771,806,839
Effective search space: 26241432526
Effective search space used: 26241432526
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: 0.68  gvh: 0.49  alm: 0.49  top: 0.53  tms: 0.00  mit: 0.21  mip: 0.00
 nuc: 0.00  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 

	 48.0 %: cytoplasmic
	 40.0 %: nuclear
	 12.0 %: mitochondrial

>> prediction for Contig-U10401-1 is cyt
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 1
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) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0