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Dicty_cDB
Contig List | Clone List | cDNA Library List
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U12608-1
Contig ID Contig-U12608-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12608-1 (Contig-U12608-1Q) /CSM_Contig/Contig-U12608-1Q.Seq.d
TTNAAAATGCTNCGAGCATGNCCCAGTNAACCNAGCTAACCNANAACCTG
AAAGNATTGNATTAACNTNTTTTGAACNACNTGTTANACNATCTGATGGN
NCNCNTNAAATGNATGNCCCNGATTATGATGGCGATAAAAANANANAGGA
TCNAAAATCNACTGCTTCAACCCCCCNAGGCNANGGNGNTTTAANTTTTT
CNACNGGTCCTTTATTTTTNCNATTNANAATNTAAAACGNTTNAACNAAA
ACCCCCTTTTTTTTTTTTAAAAAAAAAATAAATAAAAAAAA
Gap no gap
Contig length 291
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 U12608
List of clone(s) 

est1=AFI396Z,1,292
Translated Amino Acid sequence 
XKCXEHXPVNXANXXPEXIXLTXFEXXVXXSDGXXXMXXPDYDGDKXXXDXKSTASTPXG
XGXLXFSTGPLFXXXXX*nxxtktpffffkkkinkk
Translated Amino Acid sequence (All Frames) 
Frame A:
xkmlraxpsxps*pxt*kxxinxf*ttcxti*wxxxnxxpxl*wr*kxxgskixcfnppr
xxxfxffxxsfifxixnxkrxnxnplfff*kknk*kk


Frame B:
XKCXEHXPVNXANXXPEXIXLTXFEXXVXXSDGXXXMXXPDYDGDKXXXDXKSTASTPXG
XGXLXFSTGPLFXXXXX*nxxtktpffffkkkinkk


Frame C:
xnaxsmxqxtxltxnlkxlx*xxlnxxlxxlmxxxkxmxximmaikxxrixnxllqppxa
xxx*xfxxvlyfxxxxxktxxxkppffflkkk*ikk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12608-1 (Contig-U12608-1Q)
/CSM_Contig/Contig-U12608-1Q.Seq.d
         (291 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12608-1 (Contig-U12608-1Q) /CSM_Contig/Conti...   216  1e-56
Contig-U14707-1 (Contig-U14707-1Q) /CSM_Contig/Conti...    46  2e-05
Contig-U11544-1 (Contig-U11544-1Q) /CSM_Contig/Conti...    30  1.2

>Contig-U12608-1 (Contig-U12608-1Q) /CSM_Contig/Contig-U12608-1Q.Seq.d
          Length = 291

 Score =  216 bits (109), Expect = 1e-56
 Identities = 248/253 (98%)
 Strand = Plus / Plus

                                                                       
Query: 4   aaaatgctncgagcatgncccagtnaaccnagctaaccnanaacctgaaagnattgnatt 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4   aaaatgctncgagcatgncccagtnaaccnagctaaccnanaacctgaaagnattgnatt 63

                                                                       
Query: 64  aacnnnnnnngaacnacntgttanacnatctgatggnncncntnaaatgnatgncccnga 123
           |||| |    ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 64  aacntnttttgaacnacntgttanacnatctgatggnncncntnaaatgnatgncccnga 123

                                                                       
Query: 124 ttatgatggcgataaaaanananaggatcnaaaatcnactgcttcaaccccccnaggcna 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 124 ttatgatggcgataaaaanananaggatcnaaaatcnactgcttcaaccccccnaggcna 183

                                                                       
Query: 184 nggngntttaantttttcnacnggtcctttatttttncnattnanaatntaaaacgnttn 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 184 nggngntttaantttttcnacnggtcctttatttttncnattnanaatntaaaacgnttn 243

                        
Query: 244 aacnaaaaccccc 256
           |||||||||||||
Sbjct: 244 aacnaaaaccccc 256


>Contig-U14707-1 (Contig-U14707-1Q) /CSM_Contig/Contig-U14707-1Q.Seq.d
          Length = 417

 Score = 46.1 bits (23), Expect = 2e-05
 Identities = 83/105 (79%)
 Strand = Plus / Plus

                                                                       
Query: 150 atcnaaaatcnactgcttcaaccccccnaggcnanggngntttaantttttcnacnggtc 209
           ||| |||||| ||||||||||||||||  | | | || | ||||| ||||||| ||| ||
Sbjct: 194 atcaaaaatctactgcttcaaccccccttgtcaatggggttttaattttttcnncngttc 253

                                                        
Query: 210 ctttatttttncnattnanaatntaaaacgnttnaacnaaaaccc 254
            ||| ||||| | ||||| ||| |||| || ||  ||||||||||
Sbjct: 254 ttttntttttccaattnataatctaaancgttttnacnaaaaccc 298


>Contig-U11544-1 (Contig-U11544-1Q) /CSM_Contig/Contig-U11544-1Q.Seq.d
          Length = 1669

 Score = 30.2 bits (15), Expect = 1.2
 Identities = 15/15 (100%)
 Strand = Plus / Plus

                           
Query: 122  gattatgatggcgat 136
            |||||||||||||||
Sbjct: 1405 gattatgatggcgat 1419


  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: 102
Number of Sequences: 6905
Number of extensions: 102
Number of successful extensions: 27
Number of sequences better than 10.0: 3
length of query: 291
length of database: 5,674,871
effective HSP length: 15
effective length of query: 276
effective length of database: 5,571,296
effective search space: 1537677696
effective search space used: 1537677696
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 2008.12. 2
Homology vs DNA 
Query= Contig-U12608-1 (Contig-U12608-1Q) /CSM_Contig/Contig-U12608-1Q.Seq.d
         (291 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

(BJ344035) Dictyostelium discoideum cDNA clone:dda17p23, 3' ...   246   4e-61  1
(AU039035) Dictyostelium discoideum slug cDNA, clone SSM306.      167   3e-37  1
(AU034353) Dictyostelium discoideum slug cDNA, clone SLC735.      167   3e-37  1
(C94368) Dictyostelium discoideum slug cDNA, clone SSK892.        167   3e-37  1
(C94169) Dictyostelium discoideum slug cDNA, clone SSG491.        167   3e-37  1
(C92782) Dictyostelium discoideum slug cDNA, clone SSF339.        167   3e-37  1
(C92756) Dictyostelium discoideum slug cDNA, clone SSF229.        167   3e-37  1
(C92124) Dictyostelium discoideum slug cDNA, clone SSD120.        167   3e-37  1
(C90583) Dictyostelium discoideum slug cDNA, clone SSI806.        167   3e-37  1
(C84056) Dictyostelium discoideum slug cDNA, clone SSC565.        167   3e-37  1
(BJ369718) Dictyostelium discoideum cDNA clone:ddc51c18, 5' ...   159   6e-35  1
(AU037436) Dictyostelium discoideum slug cDNA, clone SSD638.      151   2e-32  1
(AU037424) Dictyostelium discoideum slug cDNA, clone SSD621.      145   1e-30  1
(BJ393036) Dictyostelium discoideum cDNA clone:dds29j19, 5' ...   141   2e-29  1
(BJ371461) Dictyostelium discoideum cDNA clone:ddc58i05, 5' ...   141   2e-29  1
(BJ366061) Dictyostelium discoideum cDNA clone:ddc37i18, 5' ...   141   2e-29  1
(BJ333432) Dictyostelium discoideum cDNA clone:dda42p18, 5' ...   141   2e-29  1
(BJ329331) Dictyostelium discoideum cDNA clone:dda24g18, 5' ...   141   2e-29  1
(BJ326774) Dictyostelium discoideum cDNA clone:dda17p23, 5' ...   141   2e-29  1
(BJ396808) Dictyostelium discoideum cDNA clone:dds44d02, 5' ...   133   4e-27  1
(BJ334675) Dictyostelium discoideum cDNA clone:dda47k11, 5' ...   133   4e-27  1
(AU036930) Dictyostelium discoideum slug cDNA, clone SSB833.      129   6e-26  1
(BJ332634) Dictyostelium discoideum cDNA clone:dda39e22, 5' ...   115   9e-22  1
(BJ370136) Dictyostelium discoideum cDNA clone:ddc53e01, 5' ...   113   3e-21  1
(BJ340702) Dictyostelium discoideum cDNA clone:dda3n07, 3' e...    70   4e-21  2
(BJ338680) Dictyostelium discoideum cDNA clone:dda62g14, 5' ...   111   1e-20  1
(BJ333831) Dictyostelium discoideum cDNA clone:dda44n01, 5' ...   107   2e-19  1
(AU061043) Dictyostelium discoideum slug cDNA, clone SLC735.      101   1e-17  1
(C90000) Dictyostelium discoideum slug cDNA, clone SSG875.         66   2e-17  2
(C92430) Dictyostelium discoideum slug cDNA, clone SSE537.         66   2e-17  2
(BJ324844) Dictyostelium discoideum cDNA clone:dda8h12, 5' e...    66   2e-17  2
(C25612) Dictyostelium discoideum slug cDNA, clone SSA269.         66   2e-17  2
(C90635) Dictyostelium discoideum slug cDNA, clone SSI254.         66   2e-17  2
(AU037687) Dictyostelium discoideum slug cDNA, clone SSE174.       66   2e-17  2
(C90752) Dictyostelium discoideum slug cDNA, clone SSJ108.         66   2e-17  2
(C91364) Dictyostelium discoideum slug cDNA, clone SSK128.         66   2e-17  2
(C93993) Dictyostelium discoideum slug cDNA, clone SSK675.         66   2e-17  2
(C94088) Dictyostelium discoideum slug cDNA, clone SSG390.         66   2e-17  2
(C25579) Dictyostelium discoideum slug cDNA, clone SSA202.         66   2e-17  2
(C92522) Dictyostelium discoideum slug cDNA, clone SSE522.         66   2e-17  2
(C92870) Dictyostelium discoideum slug cDNA, clone SSF601.         66   2e-17  2
(C92618) Dictyostelium discoideum slug cDNA, clone SSF529.         66   2e-17  2
(C92004) Dictyostelium discoideum slug cDNA, clone SSC759.         66   2e-17  2
(C91573) Dictyostelium discoideum slug cDNA, clone SSK461.         66   2e-17  2
(C90687) Dictyostelium discoideum slug cDNA, clone SSJ624.         66   2e-17  2
(C92534) Dictyostelium discoideum slug cDNA, clone SSE582.         66   3e-17  2
(C91274) Dictyostelium discoideum slug cDNA, clone SSJ735.         66   3e-17  2
(C92158) Dictyostelium discoideum slug cDNA, clone SSD160.         66   3e-17  2
(BJ341827) Dictyostelium discoideum cDNA clone:dda8h12, 3' e...    66   1e-15  2
(AU037608) Dictyostelium discoideum slug cDNA, clone SSD847.       60   1e-15  2
(BJ365568) Dictyostelium discoideum cDNA clone:ddc35f20, 5' ...    66   6e-15  2
(BJ391950) Dictyostelium discoideum cDNA clone:dds25f20, 5' ...    66   6e-15  2
(BJ368704) Dictyostelium discoideum cDNA clone:ddc47d19, 5' ...    66   5e-12  2
(BJ379036) Dictyostelium discoideum cDNA clone:ddc33g18, 3' ...    54   1e-11  2
(BJ368048) Dictyostelium discoideum cDNA clone:ddc45g05, 5' ...    66   9e-10  2
(C89740) Dictyostelium discoideum slug cDNA, clone SSG735.         66   1e-09  2
(BJ326015) Dictyostelium discoideum cDNA clone:dda3n07, 5' e...    66   1e-09  2
(BJ394814) Dictyostelium discoideum cDNA clone:dds36h15, 5' ...    66   1e-09  2
(BJ335246) Dictyostelium discoideum cDNA clone:dda49a16, 5' ...    66   1e-09  2
(BJ367759) Dictyostelium discoideum cDNA clone:ddc43k21, 5' ...    66   1e-09  2
(BJ371521) Dictyostelium discoideum cDNA clone:ddc58j10, 5' ...    66   1e-09  2
(BJ333008) Dictyostelium discoideum cDNA clone:dda41m02, 5' ...    66   1e-09  2
(BJ389737) Dictyostelium discoideum cDNA clone:dds19k22, 5' ...    66   1e-09  2
(BJ333069) Dictyostelium discoideum cDNA clone:dda41i11, 5' ...    66   1e-09  2
(BJ339273) Dictyostelium discoideum cDNA clone:dda64b21, 5' ...    66   1e-09  2
(BJ360166) Dictyostelium discoideum cDNA clone:ddc4o14, 5' e...    66   7e-07  1
(BJ359289) Dictyostelium discoideum cDNA clone:ddc13a22, 5' ...    66   7e-07  1
(BJ347989) Dictyostelium discoideum cDNA clone:dda31h21, 3' ...    66   7e-07  1
(BJ339306) Dictyostelium discoideum cDNA clone:dda64j21, 5' ...    66   7e-07  1
(BJ330523) Dictyostelium discoideum cDNA clone:dda31h21, 5' ...    66   7e-07  1
(BJ327744) Dictyostelium discoideum cDNA clone:dda21i14, 5' ...    66   7e-07  1
(C90889) Dictyostelium discoideum slug cDNA, clone SSJ272.         58   4e-06  2
(BJ372692) Dictyostelium discoideum cDNA clone:ddc13o15, 3' ...    62   1e-05  1
(BJ350850) Dictyostelium discoideum cDNA clone:dda41p06, 3' ...    60   4e-05  1
(AU074236) Dictyostelium discoideum slug cDNA, clone SSJ881.       58   2e-04  1
(AU072010) Dictyostelium discoideum slug cDNA, clone SSD177.       58   2e-04  1
(AU038813) Dictyostelium discoideum slug cDNA, clone SSL513.       58   2e-04  1
(AU038799) Dictyostelium discoideum slug cDNA, clone SSL492.       58   2e-04  1
(AU038618) Dictyostelium discoideum slug cDNA, clone SSL259.       58   2e-04  1
(AU038114) Dictyostelium discoideum slug cDNA, clone SSH287.       58   2e-04  1
(AU037564) Dictyostelium discoideum slug cDNA, clone SSD791.       58   2e-04  1
(AU037337) Dictyostelium discoideum slug cDNA, clone SSB791.       58   2e-04  1
(C94353) Dictyostelium discoideum slug cDNA, clone SSK871.         58   2e-04  1
(C94021) Dictyostelium discoideum slug cDNA, clone SSK712.         58   2e-04  1
(C93917) Dictyostelium discoideum slug cDNA, clone SSL863.         58   2e-04  1
(C92429) Dictyostelium discoideum slug cDNA, clone SSE536.         58   2e-04  1
(C90230) Dictyostelium discoideum slug cDNA, clone SSI433.         58   2e-04  1
(C89686) Dictyostelium discoideum slug cDNA, clone SSA647.         58   2e-04  1
(BJ404702) Dictyostelium discoideum cDNA clone:dds29i12, 3' ...    58   2e-04  1
(BJ401937) Dictyostelium discoideum cDNA clone:dds19k22, 3' ...    58   2e-04  1
(BJ399283) Dictyostelium discoideum cDNA clone:dds5p05, 3' e...    58   2e-04  1
(BJ382100) Dictyostelium discoideum cDNA clone:ddc43k21, 3' ...    58   2e-04  1
(BJ356715) Dictyostelium discoideum cDNA clone:dda61a07, 3' ...    56   7e-04  1
(BJ379728) Dictyostelium discoideum cDNA clone:ddc35f20, 3' ...    54   0.003  1
(BJ379022) Dictyostelium discoideum cDNA clone:ddc33e16, 3' ...    54   0.003  1
(BJ357801) Dictyostelium discoideum cDNA clone:dda64b21, 3' ...    54   0.003  1
(BJ406831) Dictyostelium discoideum cDNA clone:dds36h15, 3' ...    52   0.011  1
(BJ352069) Dictyostelium discoideum cDNA clone:dda45e13, 3' ...    52   0.011  1
(BJ350896) Dictyostelium discoideum cDNA clone:dda41i11, 3' ...    52   0.011  1
(BJ348501) Dictyostelium discoideum cDNA clone:dda33n08, 3' ...    52   0.011  1

>(BJ344035) Dictyostelium discoideum cDNA clone:dda17p23, 3' end,
           single read.
          Length = 292

 Score =  246 bits (124), Expect = 4e-61
 Identities = 253/253 (100%)
 Strand = Plus / Minus


Query: 4   aaaatgctncgagcatgncccagtnaaccnagctaaccnanaacctgaaagnattgnatt 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 289 aaaatgctncgagcatgncccagtnaaccnagctaaccnanaacctgaaagnattgnatt 230


Query: 64  aacntnttttgaacnacntgttanacnatctgatggnncncntnaaatgnatgncccnga 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 229 aacntnttttgaacnacntgttanacnatctgatggnncncntnaaatgnatgncccnga 170


Query: 124 ttatgatggcgataaaaanananaggatcnaaaatcnactgcttcaaccccccnaggcna 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 169 ttatgatggcgataaaaanananaggatcnaaaatcnactgcttcaaccccccnaggcna 110


Query: 184 nggngntttaantttttcnacnggtcctttatttttncnattnanaatntaaaacgnttn 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 109 nggngntttaantttttcnacnggtcctttatttttncnattnanaatntaaaacgnttn 50


Query: 244 aacnaaaaccccc 256
           |||||||||||||
Sbjct: 49  aacnaaaaccccc 37

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 55,020,968
Number of extensions: 2549740
Number of successful extensions: 48814
Number of sequences better than 10.0: 112
Length of query: 291
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 268
Effective length of database: 93,106,754,628
Effective search space: 24952610240304
Effective search space used: 24952610240304
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7. 4
Homology vs Protein 
Query= Contig-U12608-1 (Contig-U12608-1Q) /CSM_Contig/Contig-U12608-1Q.Seq.d
         (291 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: 161,215,282
Number of extensions: 3341831
Number of successful extensions: 282
Number of sequences better than 10.0: 0
Number of HSP's gapped: 282
Number of HSP's successfully gapped: 0
Length of query: 97
Length of database: 1,051,180,864
Length adjustment: 66
Effective length of query: 31
Effective length of database: 837,567,970
Effective search space: 25964607070
Effective search space used: 25964607070
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: 0.70  gvh: 0.53  alm: 0.55  top: 0.53  tms: 0.00  mit: 0.20  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 

	 28.0 %: mitochondrial
	 28.0 %: nuclear
	 20.0 %: cytoplasmic
	 16.0 %: cytoskeletal
	  4.0 %: Golgi
	  4.0 %: vacuolar

>> prediction for Contig-U12608-1 is mit
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 1
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