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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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-U14136-1
Contig ID Contig-U14136-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14136-1 (Contig-U14136-1Q) /CSM_Contig/Contig-U14136-1Q.Seq.d
AAATTTTTTGGTATTTAAAAGAAATATATAATTGTTTTATTATAATCAAA
TAATTTTATAAAATATCAAAAGCAACAATAAAATCTACATTATAAAAATG
ACAATATTAAAATCGATTACTAGTTTTACATTTAATATTAAAAATAATAA
TAATAATAATAAAATAAATAATATAAATGTTAAAAATAATTTTTCAAATA
ATATAATATCAGAATCTTCAACATTGGTACATTTTAAACTATGGAGAGGT
GGTACATGGCTTGATATTGCAATGGATGATAGAGTTTCCATATATACACT
TTGTTAAATTTTTAATAATAATATTATTATATATATTTTTTGTTGTATAA
TAACAAATTAATTTATTTATTATTCCAATCCTCCATCCAATTCCTTTATT
TATTCAAAATTATAAAAAAAAAAAAAAAAANTATTAAATTTNTTTNNTTT
TTTTAAAAAAAAAA
Gap no gap
Contig length 464
Chromosome number (1..6, M) 6
Chromosome length 3595308
Start point 3050924
End point 3051387
Strand (PLUS/MINUS) PLUS
Number of clones 4
Number of EST 6
Link to clone list U14136
List of clone(s) 

est1=AHN759F,1,422
est2=AHN759Z,1,375
est3=SSA204F,60,336
est4=SSA484F,60,336
est5=CHF183F,65,464
est6=CHF183Z,65,385
Translated Amino Acid sequence 
nflvfkrni*lfyynqiil*NIKSNNKIYIIKMTILKSITSFTFNIKNNNNNNKINNINV
KNNFSNNIISESSTLVHFKLWRGGTWLDIAMDDRVSIYTLC*ifnnniiiyifcciitn*
fiyysnppsnsfiyskl*kkkkkxlnxfxffkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
kffgi*kkyiivll*snnfikyqkqq*nlhykndnikidy*fyi*y*k******nk*ykc
*k*ffk*ynirifnigtf*tmerwyma*ycng**sfhiytllnf***yyyiyfllynnkl
iyllfqssiqflylfkiikkkkkxikfxxff*kk


Frame B:
nflvfkrni*lfyynqiil*NIKSNNKIYIIKMTILKSITSFTFNIKNNNNNNKINNINV
KNNFSNNIISESSTLVHFKLWRGGTWLDIAMDDRVSIYTLC*ifnnniiiyifcciitn*
fiyysnppsnsfiyskl*kkkkkxlnxfxffkkk


Frame C:
ifwylkeiyncfiiik*fykiskatikstl*k*qy*nrllvlhlilkiiiiiik*ii*ml
kiifqii*yqnlqhwyilnygevvhglilqwmiefpyihfvkfliiillyiffvv**qin
lfiipilhpiplfiqnykkkkkxy*ixxxflkkk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14136-1 (Contig-U14136-1Q)
/CSM_Contig/Contig-U14136-1Q.Seq.d
         (464 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14136-1 (Contig-U14136-1Q) /CSM_Contig/Conti...   161  8e-40
Contig-U11036-1 (Contig-U11036-1Q) /CSM_Contig/Conti...    36  0.032
Contig-U01085-1 (Contig-U01085-1Q) /CSM_Contig/Conti...    36  0.032
Contig-U12870-1 (Contig-U12870-1Q) /CSM_Contig/Conti...    34  0.13
Contig-U05861-1 (Contig-U05861-1Q) /CSM_Contig/Conti...    34  0.13
Contig-U01503-1 (Contig-U01503-1Q) /CSM_Contig/Conti...    34  0.13
Contig-U13597-1 (Contig-U13597-1Q) /CSM_Contig/Conti...    32  0.50
Contig-U13346-1 (Contig-U13346-1Q) /CSM_Contig/Conti...    32  0.50
Contig-U12894-1 (Contig-U12894-1Q) /CSM_Contig/Conti...    32  0.50
Contig-U12546-1 (Contig-U12546-1Q) /CSM_Contig/Conti...    32  0.50

>Contig-U14136-1 (Contig-U14136-1Q) /CSM_Contig/Contig-U14136-1Q.Seq.d
          Length = 464

 Score =  161 bits (81), Expect = 8e-40
 Identities = 81/81 (100%)
 Strand = Plus / Plus

                                                                       
Query: 209 tcagaatcttcaacattggtacattttaaactatggagaggtggtacatggcttgatatt 268
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 209 tcagaatcttcaacattggtacattttaaactatggagaggtggtacatggcttgatatt 268

                                
Query: 269 gcaatggatgatagagtttcc 289
           |||||||||||||||||||||
Sbjct: 269 gcaatggatgatagagtttcc 289


 Score =  133 bits (67), Expect = 2e-31
 Identities = 67/67 (100%)
 Strand = Plus / Plus

                                                                       
Query: 65  atcaaaagcaacaataaaatctacattataaaaatgacaatattaaaatcgattactagt 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65  atcaaaagcaacaataaaatctacattataaaaatgacaatattaaaatcgattactagt 124

                  
Query: 125 tttacat 131
           |||||||
Sbjct: 125 tttacat 131


 Score = 77.8 bits (39), Expect = 9e-15
 Identities = 39/39 (100%)
 Strand = Plus / Plus

                                                  
Query: 375 ccaatcctccatccaattcctttatttattcaaaattat 413
           |||||||||||||||||||||||||||||||||||||||
Sbjct: 375 ccaatcctccatccaattcctttatttattcaaaattat 413


>Contig-U11036-1 (Contig-U11036-1Q) /CSM_Contig/Contig-U11036-1Q.Seq.d
          Length = 1347

 Score = 36.2 bits (18), Expect = 0.032
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                             
Query: 86  tacattataaaaatgaca 103
           ||||||||||||||||||
Sbjct: 171 tacattataaaaatgaca 188


>Contig-U01085-1 (Contig-U01085-1Q) /CSM_Contig/Contig-U01085-1Q.Seq.d
          Length = 1232

 Score = 36.2 bits (18), Expect = 0.032
 Identities = 21/22 (95%)
 Strand = Plus / Plus

                                 
Query: 93  taaaaatgacaatattaaaatc 114
           ||||||||| ||||||||||||
Sbjct: 782 taaaaatgaaaatattaaaatc 803


  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: 2491
Number of Sequences: 6905
Number of extensions: 2491
Number of successful extensions: 203
Number of sequences better than 10.0: 63
length of query: 464
length of database: 5,674,871
effective HSP length: 16
effective length of query: 448
effective length of database: 5,564,391
effective search space: 2492847168
effective search space used: 2492847168
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 2008.12.18
Homology vs DNA 
Query= Contig-U14136-1 (Contig-U14136-1Q) /CSM_Contig/Contig-U14136-1Q.Seq.d
         (464 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

(AU075083) Dictyostelium discoideum slug cDNA, clone SSA204.      161   1e-39  2
(AU072663) Dictyostelium discoideum slug cDNA, clone SSA484.      161   1e-39  2
(BJ378773) Dictyostelium discoideum cDNA clone:ddc32e21, 3' ...   161   1e-39  2
(BJ355892) Dictyostelium discoideum cDNA clone:dda58f15, 3' ...   161   2e-39  2
(BJ364744) Dictyostelium discoideum cDNA clone:ddc32e21, 5' ...   161   2e-39  2
(BJ337744) Dictyostelium discoideum cDNA clone:dda58f15, 5' ...   161   2e-39  2
(CU467567) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   4.3    1

>(AU075083) Dictyostelium discoideum slug cDNA, clone SSA204.
          Length = 240

 Score =  161 bits (81), Expect(2) = 1e-39
 Identities = 81/81 (100%)
 Strand = Plus / Plus


Query: 209 tcagaatcttcaacattggtacattttaaactatggagaggtggtacatggcttgatatt 268
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 150 tcagaatcttcaacattggtacattttaaactatggagaggtggtacatggcttgatatt 209


Query: 269 gcaatggatgatagagtttcc 289
           |||||||||||||||||||||
Sbjct: 210 gcaatggatgatagagtttcc 230

 Score = 38.2 bits (19), Expect(2) = 1e-39
 Identities = 19/19 (100%)
 Strand = Plus / Plus


Query: 114 cgattactagttttacatt 132
           |||||||||||||||||||
Sbjct: 55  cgattactagttttacatt 73

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 102,001,289
Number of extensions: 5396267
Number of successful extensions: 326726
Number of sequences better than 10.0: 7
Length of query: 464
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 441
Effective length of database: 93,106,754,628
Effective search space: 41060078790948
Effective search space used: 41060078790948
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.10
Homology vs Protein 
Query= Contig-U14136-1 (Contig-U14136-1Q) /CSM_Contig/Contig-U14136-1Q.Seq.d
         (464 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AL954831_9(AL954831|pid:none) Zebrafish DNA sequence from clone ...    35   0.81
BT058958_1(BT058958|pid:none) Salmo salar clone ssal-rgf-516-040...    34   1.8
(Q6ZSI9) RecName: Full=Calpain-12;          EC=3.4.22.-;  &AK127...    34   1.8
(Q9VT65) RecName: Full=Calpain-B;          EC=3.4.22.-; AltName:...    33   2.4
A55054(A55054) calpain (EC 3.4.22.17) large chain - fruit fly (D...    33   2.4
X78555_1(X78555|pid:none) D.melanogaster mRNA for calpain.             33   2.4
AF062404_1(AF062404|pid:none) Drosophila melanogaster calpain mR...    33   2.4
Z46891_1(Z46891|pid:none) D.melanogaster mRNA for Calpain.             33   2.4
AL132848_2(AL132848|pid:none) Caenorhabditis elegans YAC Y47H10A...    33   3.1
BC042349_1(BC042349|pid:none) Xenopus laevis calpain 8, mRNA (cD...    33   3.1
BX649315_3(BX649315|pid:none) Zebrafish DNA sequence from clone ...    33   4.0
BC139537_1(BC139537|pid:none) Danio rerio zgc:162184, mRNA (cDNA...    33   4.0
BC054941_1(BC054941|pid:none) Danio rerio calpain 1, (mu/I) larg...    33   4.0
BC091999_1(BC091999|pid:none) Danio rerio CAPN1 protein, mRNA (c...    33   4.0
(Q8R4C0) RecName: Full=Calpain-5;          EC=3.4.22.-;  &AF4849...    33   4.0
BX004801_1(BX004801|pid:none) Zebrafish DNA sequence from clone ...    33   4.0
(Q9ER56) RecName: Full=Calpain-12;          EC=3.4.22.-;  &AJ289...    32   5.2
AK170034_1(AK170034|pid:none) Mus musculus NOD-derived CD11c +ve...    32   5.2
BC095045_1(BC095045|pid:none) Danio rerio calpain 2, (m/II) larg...    32   5.2
BX649315_1(BX649315|pid:none) Zebrafish DNA sequence from clone ...    32   5.2
AY124009_1(AY124009|pid:none) Homarus americanus muscle-specific...    32   5.2
AB209087_1(AB209087|pid:none) Homo sapiens mRNA for Hypothetical...    32   5.2
AJ289241_3(AJ289241|pid:none) Mus musculus Capn12 gene for calpa...    32   5.2
AK128124_1(AK128124|pid:none) Homo sapiens cDNA FLJ46245 fis, cl...    32   5.2
A91674_1(A91674|pid:none) Sequence 6 from Patent WO9824916.            32   5.2
AK155179_1(AK155179|pid:none) Mus musculus NOD-derived CD11c +ve...    32   5.2
AJ289243_1(AJ289243|pid:none) Mus musculus aberrrant Capn12c gen...    32   5.2
AK094150_1(AK094150|pid:none) Homo sapiens cDNA FLJ36831 fis, cl...    32   5.2
Y10552_1(Y10552|pid:none) H.sapiens mRNA for calpain-like protea...    32   5.2
A91671_1(A91671|pid:none) Sequence 3 from Patent WO9824916.            32   5.2
AY639153_1(AY639153|pid:none) Gecarcinus lateralis calpain B (Ca...    32   5.2
(O15484) RecName: Full=Calpain-5;          EC=3.4.22.-; AltName:...    32   5.2
AJ289241_2(AJ289241|pid:none) Mus musculus Capn12 gene for calpa...    32   5.2
BC155147_1(BC155147|pid:none) Danio rerio calpain 2, (m/II) larg...    32   5.2
BC169895_1(BC169895|pid:none) Xenopus laevis calpain, mRNA (cDNA...    32   6.8
AF148955_1(AF148955|pid:none) Sus scrofa lens-specific calpain L...    32   6.8
(Q9TTH8) RecName: Full=Calpain-3;          EC=3.4.22.54; AltName...    32   6.8
AF173834_1(AF173834|pid:none) Rattus norvegicus calpain Rt88' mR...    32   6.8
AF148714_1(AF148714|pid:none) Bos taurus lens-specific calpain L...    32   6.8
BC169897_1(BC169897|pid:none) Xenopus laevis calpain, mRNA (cDNA...    32   6.8
(P20807) RecName: Full=Calpain-3;          EC=3.4.22.54; AltName...    32   6.8
AB117940_1(AB117940|pid:none) Homo sapiens CAPN3 mRNA for hUp84,...    32   6.8
AF148956_1(AF148956|pid:none) Oryctolagus cuniculus lens-specifi...    32   6.8
AL935121_5(AL935121|pid:none) Mouse DNA sequence from clone RP23...    32   6.8
AB117941_1(AB117941|pid:none) Homo sapiens CAPN3 mRNA for hUp49,...    32   6.8
AF091998_1(AF091998|pid:none) Mus musculus calpain Lp82 mRNA, co...    32   6.8
AF184950_1(AF184950|pid:none) Rattus norvegicus calpain Rt90 mRN...    32   6.8
(Q6J756) RecName: Full=Calpain-11;          EC=3.4.22.-; AltName...    32   6.8
BC135915_1(BC135915|pid:none) Xenopus tropicalis calpain 8, mRNA...    32   6.8
AF052540_1(AF052540|pid:none) Rattus norvegicus calpain isoform ...    32   6.8
(Q4V8Q1) RecName: Full=Calpain 11;          EC=3.4.22.-; AltName...    32   6.8
FB775544_1(FB775544|pid:none) Sequence 51 from Patent WO20080272...    32   6.8
AF212199_1(AF212199|pid:none) Xenopus laevis calpain (CL-2) mRNA...    32   6.8
AB117943_1(AB117943|pid:none) Mus musculus Capn3 mRNA for mUp76,...    32   6.8
AL935121_6(AL935121|pid:none) Mouse DNA sequence from clone RP23...    32   6.8
BC077421_1(BC077421|pid:none) Xenopus laevis cDNA clone MGC:8218...    32   6.8
AB117944_1(AB117944|pid:none) Mus musculus Capn3 mRNA for mUp48,...    32   6.8
(P51186) RecName: Full=Calpain-3;          EC=3.4.22.54; AltName...    32   6.8
AF127764_1(AF127764|pid:none) Homo sapiens calpain 3 (CAPN3) mRN...    32   6.8
(P43368) RecName: Full=Calpain-3;          EC=3.4.22.54; AltName...    32   6.8
(Q92177) RecName: Full=Calpain-3;          EC=3.4.22.54; AltName...    32   8.9
BC063733_1(BC063733|pid:none) Xenopus laevis hypothetical protei...    32   8.9
FJ232590_1(FJ232590|pid:none) Gallus gallus breed Black-bone CAP...    32   8.9
L25598_4(L25598|pid:none) Caenorhabditis elegans cosmid C06G4, c...    32   8.9
BX004801_3(BX004801|pid:none) Zebrafish DNA sequence from clone ...    32   8.9
BC074555_1(BC074555|pid:none) Xenopus tropicalis calpain 2, (m/I...    32   8.9
AY573920_1(AY573920|pid:none) Oncorhynchus mykiss calpain 2 cata...    32   8.9
(Q9GLG2) RecName: Full=Calpain-1 catalytic subunit;          EC=...    32   8.9
BX936318_8(BX936318|pid:none) Zebrafish DNA sequence from clone ...    32   8.9
(P34308) RecName: Full=Calpain clp-1;          EC=3.4.22.-;  &L2...    32   8.9
AB181371_1(AB181371|pid:none) Oncorhynchus mykiss mRNA for m-cal...    32   8.9
BC076557_1(BC076557|pid:none) Danio rerio zgc:92480, mRNA (cDNA ...    32   8.9
FJ232591_1(FJ232591|pid:none) Gallus gallus breed Black-bone CAP...    32   8.9
FJ497056_1(FJ497056|pid:none) Gallus gallus breed Shandi Black-b...    32   8.9
AF282675_1(AF282675|pid:none) Danio rerio calpain 1 mRNA, comple...    32   8.9
BC043810_1(BC043810|pid:none) Xenopus laevis similar to calpain ...    32   8.9
AK301538_1(AK301538|pid:none) Homo sapiens cDNA FLJ53224 complet...    32   8.9

>AL954831_9(AL954831|pid:none) Zebrafish DNA sequence from clone
           DKEY-12H9 in linkage group 20, complete sequence.
          Length = 517

 Score = 35.0 bits (79), Expect = 0.81
 Identities = 11/24 (45%), Positives = 17/24 (70%)
 Frame = +2

Query: 224 LVHFKLWRGGTWLDIAMDDRVSIY 295
           + HF+ WR G W+D+ +DDR+  Y
Sbjct: 153 IFHFQFWRYGEWVDVVIDDRLPTY 176

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: 427,119,007
Number of extensions: 4969159
Number of successful extensions: 11670
Number of sequences better than 10.0: 77
Number of HSP's gapped: 11670
Number of HSP's successfully gapped: 77
Length of query: 154
Length of database: 1,051,180,864
Length adjustment: 116
Effective length of query: 38
Effective length of database: 675,740,020
Effective search space: 25678120760
Effective search space used: 25678120760
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: 0.83  gvh: 0.38  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.37  mip: 0.11
 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 

	 44.0 %: mitochondrial
	 28.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane
	  4.0 %: peroxisomal

>> prediction for Contig-U14136-1 is mit
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 1
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 2
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