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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-U12431-1
Contig ID Contig-U12431-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12431-1 (Contig-U12431-1Q) /CSM_Contig/Contig-U12431-1Q.Seq.d
AATATTTCACTTTCATACGATCATTACACTACCAATTATATACATAAAAT
TTATTTATTTAACTTTAATTATAAAATACAATAAAATACAAAAAAAAATA
ATTCAAATAAATAAAAATAAATAAATAAAAGAAGAAAAAGAAAAAGAAAA
AGAAAAAGAAAGAAAAAAAAAANNNNNNNNN----------NNNNNNNNN
NATGATCCACACGTTTTACAAGGATTACAAAATCAAGTTGCAAATTTAGA
GATTGCTCAAGCAAATAGTCTTAGATTCTTACCTCAACAATATCATGTCG
TACTATTCCAACAACAACAGCAACAACAAGCCAATCAACAACAATTACAA
TTAATGCAAATTAAACAATCAAAGGAATATATGGTTTTAACACCTGCTCA
ACAATTAATTTATAATCAACAAATTCAACAAAATCATTACAATCAACAAG
TTATACTGAGACAACAACAACAAAAATTAATGGCAATATTGGAACAACAA
AATCAAATGATAGCACAACAACAACAACAACAACATCAAATGCATCAACA
ACATCAAATGCAACCACAGCAACAACAACAACAACATCAAATGCATCAAC
AATCACCACAACAACCACAACAAATG
Gap gap included
Contig length 616
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 7539073
End point 7539670
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 2
Link to clone list U12431
List of clone(s) 

est1=VHD534F,1,172
est2=VHD534Z,173,598
Translated Amino Acid sequence 
nislsydhyttnyihkiylfnfnykiq*ntkknnsnk*k*INKRRKRKRKRKRKKKKXXX
---

---XXXXDPHVLQGLQNQVANLEIAQANSLRFLPQQYHVVLFQQQQQQQANQQQLQLMQI
KQSKEYMVLTPAQQLIYNQQIQQNHYNQQVILRQQQQKLMAILEQQNQMIAQQQQQQHQM
HQQHQMQPQQQQQQHQMHQQSPQQPQQM
Translated Amino Acid sequence (All Frames) 
Frame A:
nislsydhyttnyihkiylfnfnykiq*ntkknnsnk*k*INKRRKRKRKRKRKKKKXXX
---

---XXXXDPHVLQGLQNQVANLEIAQANSLRFLPQQYHVVLFQQQQQQQANQQQLQLMQI
KQSKEYMVLTPAQQLIYNQQIQQNHYNQQVILRQQQQKLMAILEQQNQMIAQQQQQQHQM
HQQHQMQPQQQQQQHQMHQQSPQQPQQM

Frame B:
ifhfhtiitlpiiyikfiyltliikynkiqkkiiqinknk*ikeekekekekerkkkxxx
---

---xxxmihtfykdykiklqi*rllkqivldsylnnimsyysnnnsnnkpinnnyn*ckl
nnqrniwf*hllnn*fiinkfnkiitinkly*dnnnkn*wqywnnkik**hnnnnnnikc
innikcnhsnnnnnikcinnhhnnhnk

Frame C:
yftfirslhyqlyt*nlfi*l*l*ntikykkk*fk*ikink*kkkkkkkkkkkekkxxx-
--

---xxx*strftritkssckfrdcssk*s*iltstiscrtiptttattsqsttitinan*
tikgiygfntcstinl*stnstkslqstsytettttkingnigttksndstttttttsna
sttsnattatttttsnastittttttn
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12431-1 (Contig-U12431-1Q)
/CSM_Contig/Contig-U12431-1Q.Seq.d
         (626 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12431-1 (Contig-U12431-1Q) /CSM_Contig/Conti...   218  5e-57
Contig-U14295-1 (Contig-U14295-1Q) /CSM_Contig/Conti...    38  0.011
Contig-U13416-1 (Contig-U13416-1Q) /CSM_Contig/Conti...    38  0.011
Contig-U11888-1 (Contig-U11888-1Q) /CSM_Contig/Conti...    38  0.011
Contig-U14035-1 (Contig-U14035-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U13611-1 (Contig-U13611-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U10660-1 (Contig-U10660-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U09469-1 (Contig-U09469-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U05652-1 (Contig-U05652-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U04082-1 (Contig-U04082-1Q) /CSM_Contig/Conti...    36  0.044

>Contig-U12431-1 (Contig-U12431-1Q) /CSM_Contig/Contig-U12431-1Q.Seq.d
          Length = 626

 Score =  218 bits (110), Expect = 5e-57
 Identities = 110/110 (100%)
 Strand = Plus / Plus

                                                                       
Query: 351 ttaatgcaaattaaacaatcaaaggaatatatggttttaacacctgctcaacaattaatt 410
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 351 ttaatgcaaattaaacaatcaaaggaatatatggttttaacacctgctcaacaattaatt 410

                                                             
Query: 411 tataatcaacaaattcaacaaaatcattacaatcaacaagttatactgag 460
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 411 tataatcaacaaattcaacaaaatcattacaatcaacaagttatactgag 460


 Score =  212 bits (107), Expect = 3e-55
 Identities = 107/107 (100%)
 Strand = Plus / Plus

                                                                       
Query: 202 atgatccacacgttttacaaggattacaaaatcaagttgcaaatttagagattgctcaag 261
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 202 atgatccacacgttttacaaggattacaaaatcaagttgcaaatttagagattgctcaag 261

                                                          
Query: 262 caaatagtcttagattcttacctcaacaatatcatgtcgtactattc 308
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 262 caaatagtcttagattcttacctcaacaatatcatgtcgtactattc 308


 Score =  139 bits (70), Expect = 4e-33
 Identities = 70/70 (100%)
 Strand = Plus / Plus

                                                                      
Query: 1  aatatttcactttcatacgatcattacactaccaattatatacataaaatttatttattt 60
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  aatatttcactttcatacgatcattacactaccaattatatacataaaatttatttattt 60

                    
Query: 61 aactttaatt 70
          ||||||||||
Sbjct: 61 aactttaatt 70


>Contig-U14295-1 (Contig-U14295-1Q) /CSM_Contig/Contig-U14295-1Q.Seq.d
          Length = 630

 Score = 38.2 bits (19), Expect = 0.011
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                              
Query: 44  ataaaatttatttatttaa 62
           |||||||||||||||||||
Sbjct: 615 ataaaatttatttatttaa 597


>Contig-U13416-1 (Contig-U13416-1Q) /CSM_Contig/Contig-U13416-1Q.Seq.d
          Length = 1214

 Score = 38.2 bits (19), Expect = 0.011
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                               
Query: 43   cataaaatttatttattta 61
            |||||||||||||||||||
Sbjct: 1166 cataaaatttatttattta 1148


  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: 8954
Number of Sequences: 6905
Number of extensions: 8954
Number of successful extensions: 2299
Number of sequences better than 10.0: 176
length of query: 626
length of database: 5,674,871
effective HSP length: 16
effective length of query: 610
effective length of database: 5,564,391
effective search space: 3394278510
effective search space used: 3394278510
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2008.11.30
Homology vs DNA 
Query= Contig-U12431-1 (Contig-U12431-1Q) /CSM_Contig/Contig-U12431-1Q.Seq.d
         (626 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

(AC116955) Dictyostelium discoideum chromosome 2 map 5455881...   212   4e-77  3
(BJ438718) Dictyostelium discoideum cDNA clone:ddv38c09, 3' ...   212   1e-67  2
(BJ420109) Dictyostelium discoideum cDNA clone:ddv38c09, 5' ...    66   2e-06  1
(CZ997875) 187040 Tomato MboI BAC Library Solanum lycopersic...    46   1.5    1
(CR382139) Debaryomyces hansenii chromosome G of strain CBS7...    44   5.9    1
(ES947974) 49RDOAT_UP_057_F01_27JAN2006_005 Brassica olerace...    44   5.9    1
(FF073022) G1045P340FF22.T0 Aplysia californica Pooled Norma...    44   5.9    1

>(AC116955) Dictyostelium discoideum chromosome 2 map 5455881-5481449
            strain AX4, complete sequence.
          Length = 25568

 Score =  212 bits (107), Expect(3) = 4e-77
 Identities = 107/107 (100%)
 Strand = Plus / Plus


Query: 202  atgatccacacgttttacaaggattacaaaatcaagttgcaaatttagagattgctcaag 261
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6924 atgatccacacgttttacaaggattacaaaatcaagttgcaaatttagagattgctcaag 6983


Query: 262  caaatagtcttagattcttacctcaacaatatcatgtcgtactattc 308
            |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6984 caaatagtcttagattcttacctcaacaatatcatgtcgtactattc 7030

 Score = 81.8 bits (41), Expect(3) = 4e-77
 Identities = 41/41 (100%)
 Strand = Plus / Plus


Query: 373  aggaatatatggttttaacacctgctcaacaattaatttat 413
            |||||||||||||||||||||||||||||||||||||||||
Sbjct: 7095 aggaatatatggttttaacacctgctcaacaattaatttat 7135

 Score = 65.9 bits (33), Expect(3) = 4e-77
 Identities = 33/33 (100%)
 Strand = Plus / Plus


Query: 1    aatatttcactttcatacgatcattacactacc 33
            |||||||||||||||||||||||||||||||||
Sbjct: 5391 aatatttcactttcatacgatcattacactacc 5423

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 169,344,341
Number of extensions: 9519685
Number of successful extensions: 613785
Number of sequences better than 10.0: 7
Length of query: 626
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 603
Effective length of database: 93,106,754,628
Effective search space: 56143373040684
Effective search space used: 56143373040684
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 3
Homology vs Protein 
Query= Contig-U12431-1 (Contig-U12431-1Q) /CSM_Contig/Contig-U12431-1Q.Seq.d
         (626 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q86HX9) RecName: Full=Myb-like protein K;  &AC116955_3(AC116955...    68   2e-10

>(Q86HX9) RecName: Full=Myb-like protein K;
           &AC116955_3(AC116955|pid:none)
          Length = 894

 Score = 67.8 bits (164), Expect = 2e-10
 Identities = 44/97 (45%), Positives = 44/97 (45%)
 Frame = +3

Query: 204 DPHVLQGLQNQVANLEIAQANSLRFLPXXXXXXXXXXXXXXXXXXXXXXXXXXXXSKEYM 383
           DPHVLQGLQNQVANLEIAQANSLRFLP                            SKEYM
Sbjct: 387 DPHVLQGLQNQVANLEIAQANSLRFLPQQYHVVLFQQQQQQQANQQQLQLMQIKQSKEYM 446

Query: 384 VLTPAXXXXXXXXXXXXXXXXXXXXXXXXXKLMAILE 494
           VLTPA                         KLMAILE
Sbjct: 447 VLTPAQQLIYNQQIQQNHYNQQVILRQQQQKLMAILE 483

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: 299,047,897
Number of extensions: 5508316
Number of successful extensions: 5351
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5350
Number of HSP's successfully gapped: 1
Length of query: 208
Length of database: 1,051,180,864
Length adjustment: 123
Effective length of query: 85
Effective length of database: 653,084,107
Effective search space: 55512149095
Effective search space used: 55512149095
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: 31 (16.5 bits)
PSORT 

 psg: 0.17  gvh: 0.46  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.52  mip: 0.00
 nuc: 0.55  erl: 0.00  erm: 0.40  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 

	 76.0 %: nuclear
	 16.0 %: cytoplasmic
	  8.0 %: mitochondrial

>> prediction for Contig-U12431-1 is nuc
VS (DIR, S) 0
VH (FL, L) 1
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) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0