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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
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Contig-U04336-1
Contig ID Contig-U04336-1
Contig update 2001. 8.29
Contig sequence 
>Contig-U04336-1 (Contig-U04336-1Q) /CSM_Contig/Contig-U04336-1Q.Seq.d
ATTTTAAATTTATTTTATTTAGTTTTTTTTATTTATTTTTATTTTGATTA
TAGTAAAATTAAATTTTTATTTAAATCATAAAAAAAAAAAATTTCATTCA
TTAAAAAAAAAAAAAATGAACAAAAATAATAAATTAATATTATTATTTAC
AATAGTCTTGCTATCTATTAGCTATTCATTAGCAGCTATTGTTTCTCAAC
AAGGTGGAGATATTCCAAATGGTGTTAACTCTAATAATAAAAATAAAAAA
GATCTTGCAAGTGCAGCAGACCAATTAAAATATTCAATTATTTTTAGAAA
TATGAATGTGGTACAATAGCAAATAAAGGAAGTGTTAGAATTGATATGCA
AAGCTCTTTCACAAGTAATGGTCCAGTGTGGCTCGACTTGAAAGCCCAAT
TAAATGGTGTCAAAGGAAATTCAACAATTGCTCATGTTATAGTTGATGGC
AATACAATCACTGGTATTGGTGCTGAACAAGTCAGTGTTACTAATATCAC
TATTGTTGCTATGATGAATTCATATGCCTCTGGAAAAACCTGCAATGTTT
TTGAAAATGGTCTTTAAACTGGTTATAAAAAACAAAAAAAAAAAAAACAG
AATGATTACATTCATTTTTTTTNTTTTATATCATTTTGTGTATTTTGATT
ACTCTATATTTATGTTATTTTATTCACTAAAAAAAAATTCCATTATTTTT
TTTAGAAA
Gap no gap
Contig length 708
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 3
Number of EST 3
Link to clone list U04336
List of clone(s) 

est1=SSD612E,1,569
est2=SSA222Z,94,580
est3=SSC219Z,255,709
Translated Amino Acid sequence 
f*iyfi*FFLFIFILIIVKLNFYLNHKKKKFHSLKKKKMNKNNKLILLFTIVLLSISYSL
AAIVSQQGGDIPNGVNSNNKNKKDLASAADQLKYSIIFRNMNVVQ*qikevlelickals
qvmvqcgst*kpn*mvskeiqqllml*lmaiqslvlvlnksvllisllll**ihmplekp
amflkmvfklviknkkkknrmitfiffxlyhfvyfdysifmlfyslkknsiiffr
Translated Amino Acid sequence (All Frames) 
Frame A:
ilnlfylvffiyfyfdyskikflfks*kkkisfikkkkneqk**iniiiynslaiy*lfi
ssycfstrwryskwc*l***k*krsckcsrpikifnyf*kyecgtiankgsvridmqssf
tsngpvwldlkaqlngvkgnstiahvivdgntitgigaeqvsvtnitivammnsyasgkt
cnvfengl*tgykkqkkkkqndyihffxfisfcvf*llyiyvilftkkkfhyff*k


Frame B:
f*iyfi*FFLFIFILIIVKLNFYLNHKKKKFHSLKKKKMNKNNKLILLFTIVLLSISYSL
AAIVSQQGGDIPNGVNSNNKNKKDLASAADQLKYSIIFRNMNVVQ*qikevlelickals
qvmvqcgst*kpn*mvskeiqqllml*lmaiqslvlvlnksvllisllll**ihmplekp
amflkmvfklviknkkkknrmitfiffxlyhfvyfdysifmlfyslkknsiiffr


Frame C:
fkfilfsffylflf*l**n*ifi*iikkknfih*kkkk*tkiin*yyylq*scyllaih*
qllflnkveifqmvltliikikkilqvqqtn*niqlflei*mwynsk*rkc*n*yaklfh
k*wssvarlespikwcqrkfnncscys*wqynhwywc*tsqcy*yhyccydeficlwknl
qcf*kwslnwl*ktkkkkte*lhsffxfyiilcilitlylcyfih*kkiplffle
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U04336-1 (Contig-U04336-1Q)
/CSM_Contig/Contig-U04336-1Q.Seq.d
         (708 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U04336-1 (Contig-U04336-1Q) /CSM_Contig/Conti...   841  0.0
Contig-U14359-1 (Contig-U14359-1Q) /CSM_Contig/Conti...    46  5e-05
Contig-U12085-1 (Contig-U12085-1Q) /CSM_Contig/Conti...    44  2e-04
Contig-U11385-1 (Contig-U11385-1Q) /CSM_Contig/Conti...    40  0.003
Contig-U11382-1 (Contig-U11382-1Q) /CSM_Contig/Conti...    40  0.003
Contig-U06918-1 (Contig-U06918-1Q) /CSM_Contig/Conti...    40  0.003
Contig-U10137-1 (Contig-U10137-1Q) /CSM_Contig/Conti...    38  0.013
Contig-U09690-1 (Contig-U09690-1Q) /CSM_Contig/Conti...    38  0.013
Contig-U04264-1 (Contig-U04264-1Q) /CSM_Contig/Conti...    38  0.013
Contig-U04168-1 (Contig-U04168-1Q) /CSM_Contig/Conti...    38  0.013

>Contig-U04336-1 (Contig-U04336-1Q) /CSM_Contig/Contig-U04336-1Q.Seq.d
          Length = 708

 Score =  841 bits (424), Expect = 0.0
 Identities = 448/460 (97%)
 Strand = Plus / Plus

                                                                       
Query: 117 tgaacaaaaataataaattaatattattatttacaatagtcttgctatctattagctatt 176
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 117 tgaacaaaaataataaattaatattattatttacaatagtcttgctatctattagctatt 176

                                                                       
Query: 177 cattagcagctattgtttctcaacaaggtggagatattccaaatggtgttaactctaata 236
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 177 cattagcagctattgtttctcaacaaggtggagatattccaaatggtgttaactctaata 236

                                                                       
Query: 237 atnnnnnnnnnnnngatcttgcaagtgcagcagaccaattaaaatattcaattattttta 296
           ||            ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 237 ataaaaataaaaaagatcttgcaagtgcagcagaccaattaaaatattcaattattttta 296

                                                                       
Query: 297 gaaatatgaatgtggtacaatagcaaataaaggaagtgttagaattgatatgcaaagctc 356
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 297 gaaatatgaatgtggtacaatagcaaataaaggaagtgttagaattgatatgcaaagctc 356

                                                                       
Query: 357 tttcacaagtaatggtccagtgtggctcgacttgaaagcccaattaaatggtgtcaaagg 416
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 357 tttcacaagtaatggtccagtgtggctcgacttgaaagcccaattaaatggtgtcaaagg 416

                                                                       
Query: 417 aaattcaacaattgctcatgttatagttgatggcaatacaatcactggtattggtgctga 476
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 417 aaattcaacaattgctcatgttatagttgatggcaatacaatcactggtattggtgctga 476

                                                                       
Query: 477 acaagtcagtgttactaatatcactattgttgctatgatgaattcatatgcctctggaaa 536
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 477 acaagtcagtgttactaatatcactattgttgctatgatgaattcatatgcctctggaaa 536

                                                   
Query: 537 aacctgcaatgtttttgaaaatggtctttaaactggttat 576
           ||||||||||||||||||||||||||||||||||||||||
Sbjct: 537 aacctgcaatgtttttgaaaatggtctttaaactggttat 576


 Score =  109 bits (55), Expect = 4e-24
 Identities = 55/55 (100%)
 Strand = Plus / Plus

                                                                  
Query: 624 ttttatatcattttgtgtattttgattactctatatttatgttattttattcact 678
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 624 ttttatatcattttgtgtattttgattactctatatttatgttattttattcact 678


 Score = 67.9 bits (34), Expect = 1e-11
 Identities = 34/34 (100%)
 Strand = Plus / Plus

                                            
Query: 46 gattatagtaaaattaaatttttatttaaatcat 79
          ||||||||||||||||||||||||||||||||||
Sbjct: 46 gattatagtaaaattaaatttttatttaaatcat 79


>Contig-U14359-1 (Contig-U14359-1Q) /CSM_Contig/Contig-U14359-1Q.Seq.d
          Length = 712

 Score = 46.1 bits (23), Expect = 5e-05
 Identities = 23/23 (100%)
 Strand = Plus / Minus

                                  
Query: 624 ttttatatcattttgtgtatttt 646
           |||||||||||||||||||||||
Sbjct: 149 ttttatatcattttgtgtatttt 127


>Contig-U12085-1 (Contig-U12085-1Q) /CSM_Contig/Contig-U12085-1Q.Seq.d
          Length = 1563

 Score = 44.1 bits (22), Expect = 2e-04
 Identities = 25/26 (96%)
 Strand = Plus / Minus

                                      
Query: 122  aaaaataataaattaatattattatt 147
            ||||||||||||||| ||||||||||
Sbjct: 1476 aaaaataataaattattattattatt 1451


  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: 15,038
Number of Sequences: 6905
Number of extensions: 15038
Number of successful extensions: 2260
Number of sequences better than 10.0: 412
length of query: 708
length of database: 5,674,871
effective HSP length: 16
effective length of query: 692
effective length of database: 5,564,391
effective search space: 3850558572
effective search space used: 3850558572
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 2009. 6.16
Homology vs DNA 
Query= Contig-U04336-1 (Contig-U04336-1Q) /CSM_Contig/Contig-U04336-1Q.Seq.d
         (708 letters)

Database: ddbj_A
           102,105,510 sequences; 101,790,757,118 total letters

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

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(C25588) Dictyostelium discoideum slug cDNA, clone SSA222.        531   0.0    3
(AU037416) Dictyostelium discoideum slug cDNA, clone SSD612.      525   0.0    3
(C91916) Dictyostelium discoideum slug cDNA, clone SSC219.        525   e-172  3
(AU072182) Dictyostelium discoideum slug cDNA, clone SSD612.      222   1e-53  1
(AC117075) Dictyostelium discoideum chromosome 2 map 5201047...    50   0.12   1
(AP008207) Oryza sativa (japonica cultivar-group) genomic DN...    48   0.46   1
(AP003328) Oryza sativa Japonica Group genomic DNA, chromoso...    48   0.46   1
(AM478385) Vitis vinifera contig VV78X271589.3, whole genome...    48   0.46   1
(AC170111) Bos taurus clone CH240-243O12, WORKING DRAFT SEQU...    48   0.46   1
(AC167647) Bos taurus clone CH240-191M13, WORKING DRAFT SEQU...    48   0.46   1
(AC116306) Dictyostelium discoideum chromosome 2 map 1004546...    42   0.74   2
(AC114043) Rattus norvegicus clone CH230-187H10, WORKING DRA...    40   0.93   2
(BX322621) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   1.7    3
(AC109653) Rattus norvegicus clone CH230-164M11, *** SEQUENC...    46   1.8    1
(AC173574) Bos taurus clone CH240-393F22, WORKING DRAFT SEQU...    46   1.8    1
(EK329904) 1095467019782 Global-Ocean-Sampling_GS-31-01-01-1...    46   1.8    1
(EJ223209) 1092351300468 Global-Ocean-Sampling_GS-27-01-01-1...    46   1.8    1
(CP000678) Methanobrevibacter smithii ATCC 35061, complete g...    46   1.8    1
(CR936300) Zebrafish DNA sequence from clone CH211-63J24 in ...    44   2.1    3
(BA000021) Wigglesworthia glossinidia endosymbiont of Glossi...    32   3.2    2
(AC186363) Gallus gallus BAC clone CH261-10O11 from chromoso...    40   3.9    4
(EJ679077) 1092955112519 Global-Ocean-Sampling_GS-30-02-01-1...    34   5.7    3
(EJ893155) 1093018453747 Global-Ocean-Sampling_GS-30-02-01-1...    34   6.2    3
(EJ849838) 1093017874441 Global-Ocean-Sampling_GS-30-02-01-1...    34   6.3    3
(EK406170) 1095505003298 Global-Ocean-Sampling_GS-31-01-01-1...    34   6.3    3
(AM436164) Vitis vinifera, whole genome shotgun sequence, co...    44   6.7    2
(CR382337) Zebrafish DNA sequence from clone DKEY-26N5 in li...    44   7.2    1
(CR318660) Zebrafish DNA sequence from clone CH211-149I8 in ...    44   7.2    1
(BX649552) Zebrafish DNA sequence from clone CH211-91I13 in ...    44   7.2    1
(BV093683) RPAMMSEQ0005620 Roche Palo Alto Mus musculus STS ...    44   7.2    1
(AC158543) Mus musculus BAC clone RP23-425C23 from chromosom...    44   7.2    1
(AC109619) Mus musculus chromosome 19, clone RP23-427F6, com...    44   7.2    1
(AM462415) Vitis vinifera contig VV78X223747.6, whole genome...    44   7.2    1
(AM431120) Vitis vinifera contig VV78X103596.3, whole genome...    44   7.2    1
(AF529441) Bombus weisi 12S small subunit ribosomal RNA gene...    44   7.2    1
(AC160436) Bos taurus clone CH240-85N9, WORKING DRAFT SEQUEN...    44   7.2    1
(AC120659) Rattus norvegicus clone CH230-35G21, WORKING DRAF...    44   7.2    1
(AC115491) Rattus norvegicus clone CH230-112M7, *** SEQUENCI...    44   7.2    1
(CU914426) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   7.2    1
(CU468999) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   7.2    1
(CU407162) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   7.2    1
(BX511255) Zebrafish DNA sequence *** SEQUENCING CANCELLED *...    44   7.2    1
(AC170182) Mus musculus chromosome 19 clone RP24-219I1 map 1...    44   7.2    1
(AK043742) Mus musculus 10 days neonate cortex cDNA, RIKEN f...    44   7.2    1
(ER450080) 1092963846420 Global-Ocean-Sampling_GS-35-01-01-1...    44   7.2    1
(ER416565) 1092963673877 Global-Ocean-Sampling_GS-35-01-01-1...    44   7.2    1
(DB774600) Apis mellifera head cDNA, RIKEN full-length enric...    44   7.2    1
(CV992269) IpCGFr2_3_D10_21 IpCGFr2 Ictalurus punctatus cDNA...    44   7.2    1
(CK420657) AUF_IpTrk_27_f07 Trunk kidney cDNA library Ictalu...    44   7.2    1
(CD501732) CDA52-E01.y1d-s SHGC-CDA Gasterosteus aculeatus c...    44   7.2    1
(BB266775) Mus musculus 10 days neonate cortex cDNA, RIKEN f...    44   7.2    1
(CP000633) Agrobacterium vitis S4 chromosome 1, complete seq...    44   7.2    1
(CP000117) Anabaena variabilis ATCC 29413, complete genome.        44   7.2    1
(CP000111) Prochlorococcus marinus str. MIT 9312, complete g...    44   7.2    1
(EC820018) SME00006492 esmbsro2 Sawyeria marylandensis cDNA,...    34   8.6    2
(AC158126) Mus musculus chromosome 5, clone RP24-220P21, com...    38   9.9    2

>(C25588) Dictyostelium discoideum slug cDNA, clone SSA222.
          Length = 485

 Score =  531 bits (268), Expect(3) = 0.0
 Identities = 268/268 (100%)
 Strand = Plus / Plus


Query: 309 tggtacaatagcaaataaaggaagtgttagaattgatatgcaaagctctttcacaagtaa 368
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 214 tggtacaatagcaaataaaggaagtgttagaattgatatgcaaagctctttcacaagtaa 273


Query: 369 tggtccagtgtggctcgacttgaaagcccaattaaatggtgtcaaaggaaattcaacaat 428
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 274 tggtccagtgtggctcgacttgaaagcccaattaaatggtgtcaaaggaaattcaacaat 333


Query: 429 tgctcatgttatagttgatggcaatacaatcactggtattggtgctgaacaagtcagtgt 488
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 334 tgctcatgttatagttgatggcaatacaatcactggtattggtgctgaacaagtcagtgt 393


Query: 489 tactaatatcactattgttgctatgatgaattcatatgcctctggaaaaacctgcaatgt 548
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 394 tactaatatcactattgttgctatgatgaattcatatgcctctggaaaaacctgcaatgt 453


Query: 549 ttttgaaaatggtctttaaactggttat 576
           ||||||||||||||||||||||||||||
Sbjct: 454 ttttgaaaatggtctttaaactggttat 481

 Score =  222 bits (112), Expect(3) = 0.0
 Identities = 112/112 (100%)
 Strand = Plus / Plus


Query: 127 taataaattaatattattatttacaatagtcttgctatctattagctattcattagcagc 186
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34  taataaattaatattattatttacaatagtcttgctatctattagctattcattagcagc 93


Query: 187 tattgtttctcaacaaggtggagatattccaaatggtgttaactctaataat 238
           ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 94  tattgtttctcaacaaggtggagatattccaaatggtgttaactctaataat 145

 Score =  115 bits (58), Expect(3) = 0.0
 Identities = 58/58 (100%)
 Strand = Plus / Plus


Query: 251 gatcttgcaagtgcagcagaccaattaaaatattcaattatttttagaaatatgaatg 308
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 158 gatcttgcaagtgcagcagaccaattaaaatattcaattatttttagaaatatgaatg 215

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 580,923,295
Number of extensions: 36328177
Number of successful extensions: 3010116
Number of sequences better than 10.0: 57
Length of query: 708
Length of database: 101,790,757,118
Length adjustment: 24
Effective length of query: 684
Effective length of database: 99,340,224,878
Effective search space: 67948713816552
Effective search space used: 67948713816552
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.30
Homology vs Protein 
Query= Contig-U04336-1 (Contig-U04336-1Q) /CSM_Contig/Contig-U04336-1Q.Seq.d
         (708 letters)

Database: nrp_A
           3,268,448 sequences; 1,061,185,681 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(O96042) RecName: Full=Differentiation-associated protein 2;    ...    35   1.7

>(O96042) RecName: Full=Differentiation-associated protein 2;
             Short=DIA-2; Flags: Precursor;
           &AB007027_1(AB007027|pid:none)
          Length = 151

 Score = 35.4 bits (80), Expect = 1.7
 Identities = 29/81 (35%), Positives = 36/81 (44%), Gaps = 4/81 (4%)
 Frame = +1

Query: 328 GSVRIDMQSSFTSNGPVW----LDLKAQLNGVKGNSTIAHVIVDGNTITGIGAEQVSVTN 495
           G +RID Q SF+           +L+AQ NG K + T+AHV V         AEQ  V
Sbjct: 72  GEIRIDQQGSFSRGEKKKKFKVYNLQAQTNG-KSSKTVAHVEVFDTIDAKTKAEQNEVLA 130

Query: 496 ITIVAMMNSYASGKTCNVFEN 558
           +   A   S  SGK   V  N
Sbjct: 131 LAKEAFTKSKDSGKLYQVIPN 151

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: 3268448
Number of Hits to DB: 763,024,378
Number of extensions: 12660116
Number of successful extensions: 34469
Number of sequences better than 10.0: 1
Number of HSP's gapped: 34417
Number of HSP's successfully gapped: 1
Length of query: 236
Length of database: 1,061,185,681
Length adjustment: 125
Effective length of query: 111
Effective length of database: 652,629,681
Effective search space: 72441894591
Effective search space used: 72441894591
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: 1.03  gvh: 0.73  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.27  mip: 0.00
 nuc: 0.10  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 

	 48.0 %: extracellular, including cell wall
	 16.0 %: cytoplasmic
	 12.0 %: mitochondrial
	 12.0 %: nuclear
	  8.0 %: vacuolar
	  4.0 %: cytoskeletal

>> prediction for Contig-U04336-1 is exc
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) 3
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