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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-U14449-1
Contig ID Contig-U14449-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14449-1 (Contig-U14449-1Q) /CSM_Contig/Contig-U14449-1Q.Seq.d
GCATATTACTTTAAACCAATTGATCCTTCAGTTNTAGATGCANTAAATGG
CCAAGCTCCANCAAATATAGATGAATTAAATTCAATTGAAGTTGATCAAC
AAAGATTAGATAATGANATTGTCCAACAACAACAACAACAAGAAGAACAA
CAACAACAACAACAACAAGGAAAAGAACAACAACAAGAAAAGAGTATAAT
CTCATCTAAAAATTCCTCACCAAGATCTTTANAATCAAATTCATTAAATG
GAAGTAGTAAATTGAGAAAATCAAAAGGTTTTAAAAAAGGTGATTATGAN
AATAATATAGATGATATTGATATTCCAACTTCATCTTCAATGTGTAGAAG
AAATACAAGTAATAATAATAGTTTAAATAATAGTA
Gap no gap
Contig length 385
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 1687567
End point 1687182
Strand (PLUS/MINUS) MINUS
Number of clones 2
Number of EST 2
Link to clone list U14449
List of clone(s) 

est1=CHP406Z,-2,386
est2=CHR784Z,120,248
Translated Amino Acid sequence 
AYYFKPIDPSVXDAXNGQAPXNIDELNSIEVDQQRLDNXIVQQQQQQEEQQQQQQQGKEQ
QQEKSIISSKNSSPRSLXSNSLNGSSKLRKSKGFKKGDYXNNIDDIDIPTSSSMCRRNTS
NNNSLNNS
Translated Amino Acid sequence (All Frames) 
Frame A:
AYYFKPIDPSVXDAXNGQAPXNIDELNSIEVDQQRLDNXIVQQQQQQEEQQQQQQQGKEQ
QQEKSIISSKNSSPRSLXSNSLNGSSKLRKSKGFKKGDYXNNIDDIDIPTSSSMCRRNTS
NNNSLNNS


Frame B:
hitlnqlilqx*mx*maklxqi*mn*iqlklinkd*imxlsnnnnnkknnnnnnnkeknn
nkkrv*shlkiphqdlxnqih*mevvn*enqkvlkkvimxii*milifqlhlqcveeiqv
iiiv*iiv


Frame C:
ill*tn*sfsxrcxkwpssxkyr*ikfn*s*stkir**xcptttttrrtttttttrkrtt
trkeynli*kfltkifxikfikwk**iekikrf*kr*l*x*yr*y*ysnfifnv*kkyk*
***fk**
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14449-1 (Contig-U14449-1Q)
/CSM_Contig/Contig-U14449-1Q.Seq.d
         (385 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14449-1 (Contig-U14449-1Q) /CSM_Contig/Conti...   383  e-106
Contig-U13839-1 (Contig-U13839-1Q) /CSM_Contig/Conti...    44  1e-04
Contig-U04392-1 (Contig-U04392-1Q) /CSM_Contig/Conti...    44  1e-04
Contig-U03010-1 (Contig-U03010-1Q) /CSM_Contig/Conti...    44  1e-04
Contig-U13500-1 (Contig-U13500-1Q) /CSM_Contig/Conti...    40  0.002
Contig-U12206-1 (Contig-U12206-1Q) /CSM_Contig/Conti...    40  0.002
Contig-U11687-1 (Contig-U11687-1Q) /CSM_Contig/Conti...    40  0.002
Contig-U12561-1 (Contig-U12561-1Q) /CSM_Contig/Conti...    38  0.007
Contig-U12495-1 (Contig-U12495-1Q) /CSM_Contig/Conti...    38  0.007
Contig-U12161-1 (Contig-U12161-1Q) /CSM_Contig/Conti...    36  0.026

>Contig-U14449-1 (Contig-U14449-1Q) /CSM_Contig/Contig-U14449-1Q.Seq.d
          Length = 385

 Score =  383 bits (193), Expect = e-106
 Identities = 199/199 (100%)
 Strand = Plus / Plus

                                                                       
Query: 187 gaaaagagtataatctcatctaaaaattcctcaccaagatctttanaatcaaattcatta 246
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 187 gaaaagagtataatctcatctaaaaattcctcaccaagatctttanaatcaaattcatta 246

                                                                       
Query: 247 aatggaagtagtaaattgagaaaatcaaaaggttttaaaaaaggtgattatganaataat 306
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 247 aatggaagtagtaaattgagaaaatcaaaaggttttaaaaaaggtgattatganaataat 306

                                                                       
Query: 307 atagatgatattgatattccaacttcatcttcaatgtgtagaagaaatacaagtaataat 366
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 307 atagatgatattgatattccaacttcatcttcaatgtgtagaagaaatacaagtaataat 366

                              
Query: 367 aatagtttaaataatagta 385
           |||||||||||||||||||
Sbjct: 367 aatagtttaaataatagta 385


 Score =  220 bits (111), Expect = 8e-58
 Identities = 123/123 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   gcatattactttaaaccaattgatccttcagttntagatgcantaaatggccaagctcca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   gcatattactttaaaccaattgatccttcagttntagatgcantaaatggccaagctcca 60

                                                                       
Query: 61  ncaaatatagatgaattaaattcaattgaagttgatcaacaaagattagataatganatt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  ncaaatatagatgaattaaattcaattgaagttgatcaacaaagattagataatganatt 120

              
Query: 121 gtc 123
           |||
Sbjct: 121 gtc 123


>Contig-U13839-1 (Contig-U13839-1Q) /CSM_Contig/Contig-U13839-1Q.Seq.d
          Length = 1974

 Score = 44.1 bits (22), Expect = 1e-04
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 360 taataataatagtttaaataat 381
           ||||||||||||||||||||||
Sbjct: 553 taataataatagtttaaataat 574


>Contig-U04392-1 (Contig-U04392-1Q) /CSM_Contig/Contig-U04392-1Q.Seq.d
          Length = 380

 Score = 44.1 bits (22), Expect = 1e-04
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 63  aaatatagatgaattaaattca 84
           ||||||||||||||||||||||
Sbjct: 274 aaatatagatgaattaaattca 295


  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: 15,730
Number of Sequences: 6905
Number of extensions: 15730
Number of successful extensions: 1620
Number of sequences better than 10.0: 451
length of query: 385
length of database: 5,674,871
effective HSP length: 16
effective length of query: 369
effective length of database: 5,564,391
effective search space: 2053260279
effective search space used: 2053260279
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 2008.12.23
Homology vs DNA 
Query= Contig-U14449-1 (Contig-U14449-1Q) /CSM_Contig/Contig-U14449-1Q.Seq.d
         (385 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

(BJ383183) Dictyostelium discoideum cDNA clone:ddc52l02, 3' ...   371   e-157  2
(AC116963) Dictyostelium discoideum chromosome 2 map 4657875...   363   e-152  2
(BJ383261) Dictyostelium discoideum cDNA clone:ddc52l11, 3' ...    42   0.003  2
(AC117176) Dictyostelium discoideum chromosome 2 map 5018074...    52   0.015  1
(EJ468539) 1095403395763 Global-Ocean-Sampling_GS-28-01-01-1...    52   0.015  1
(EY863829) CM30-C1-401-056-D05-CT.F Sweet lime leaf, infecte...    52   0.015  1
(CP000048) Borrelia hermsii DAH, complete genome.                  36   0.049  6
(EU848493) Clostridium perfringens A strain CP4 TpeL (tpeL) ...    36   0.16   3
(EJ299771) 1095390004559 Global-Ocean-Sampling_GS-27-01-01-1...    36   0.17   2
(BX085194) Zebrafish DNA sequence from clone DKEY-242M13 in ...    48   0.23   1
(AB262081) Clostridium perfringens gene for TpeL, complete cds.    36   0.25   3
(DE243915) Trifolium pratense DNA, clone:RCM02471.                 40   0.26   2
(AC141759) Apis mellifera clone CH224-60D17, WORKING DRAFT S...    46   0.26   2
(ER543344) 1093016089679 Global-Ocean-Sampling_GS-35-01-01-1...    42   0.37   2
(EJ004163) 1091121291415 Global-Ocean-Sampling_GS-26-01-01-1...    42   0.37   2
(AC116918) Dictyostelium discoideum chromosome 2 map 6143698...    38   0.41   3
(CR762437) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   0.56   4
(AC115592) Dictyostelium discoideum chromosome 2 map 1-12595...    44   0.60   2
(EJ667910) 1092955048435 Global-Ocean-Sampling_GS-30-02-01-1...    34   0.64   2
(EJ652010) 1092954004392 Global-Ocean-Sampling_GS-30-02-01-1...    34   0.64   2
(AF072431) Dictyostelium discoideum putative RNA binding pro...    44   0.65   2
(AY211984) Dictyostelium discoideum putative cyclic nucleoti...    44   0.89   2
(BX649440) Zebrafish DNA sequence from clone CH211-198M12 in...    46   0.90   1
(CR854994) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   0.90   1
(AP008210) Oryza sativa (japonica cultivar-group) genomic DN...    46   0.90   1
(AL606616) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   0.90   1
(AL606612) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   0.90   1
(BD428934) Method and nucleic acids for pharmacogenomic meth...    46   0.90   1
(AX348413) Sequence 108 from Patent WO0202806.                     46   0.90   1
(AR284435) Sequence 485 from patent US 6528260.                    46   0.90   1
(AR283954) Sequence 4 from patent US 6528260.                      46   0.90   1
(AC115682) Dictyostelium discoideum chromosome 2 map 4101105...    46   0.90   1
(AY341028) Homo sapiens microsomal glutathione S-transferase...    46   0.90   1
(AC112236) Homo sapiens BAC clone RP11-308D13 from 4, comple...    46   0.90   1
(AC125905) Rattus norvegicus clone CH230-77A20, WORKING DRAF...    46   0.90   1
(AC094673) Rattus norvegicus clone CH230-5G1, *** SEQUENCING...    46   0.90   1
(AC019049) Homo sapiens chromosome 4 clone RP11-90M18, WORKI...    46   0.90   1
(EJ406272) 1093012098066 Global-Ocean-Sampling_GS-28-01-01-1...    46   0.90   1
(CW584753) OA_ABa0116I01.r OA_ABa Oryza australiensis genomi...    46   0.90   1
(CW552879) OA_ABa0071P20.f OA_ABa Oryza australiensis genomi...    46   0.90   1
(AG880352) Oryza sativa Indica Group genomic DNA, BAC end se...    46   0.90   1
(EC823681) SME00010224 esmbsro2 Sawyeria marylandensis cDNA,...    46   0.90   1
(EY389076) CAXA7653.rev CAXA Helobdella robusta Subtracted L...    46   0.90   1
(EY367932) CAXA11523.rev CAXA Helobdella robusta Subtracted ...    46   0.90   1
(EY361112) CAWZ7545.rev CAWZ Helobdella robusta Primary Late...    46   0.90   1
(AC116957) Dictyostelium discoideum chromosome 2 map 1685067...    36   0.91   8
(CR356247) Zebrafish DNA sequence from clone DKEY-193L8 in l...    40   0.95   2
(EK405738) 1095500042579 Global-Ocean-Sampling_GS-31-01-01-1...    40   1.2    2
(AY392444) Dictyostelium discoideum RNA-binding protein gene...    44   1.2    2
(AL049185) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    38   2.3    4
(BH176617) 007_M_07-rev SmBAC1 Schistosoma mansoni genomic c...    36   2.6    2
(AL613576) T3 end of clone 007AG04 of library SmBAC1 from st...    36   2.6    2
(BJ427098) Dictyostelium discoideum cDNA clone:ddv61c12, 5' ...    40   2.9    2
(AC173562) Strongylocentrotus purpuratus clone R3-1040C11, W...    40   3.1    3
(BJ397759) Dictyostelium discoideum cDNA clone:dds47a13, 5' ...    40   3.2    2
(CR847503) Zebrafish DNA sequence from clone DKEY-20D21 in l...    44   3.6    1
(AM479642) Vitis vinifera contig VV78X252907.7, whole genome...    44   3.6    1
(AY163574) Dictyostelium discoideum RGS-containing protein k...    44   3.6    1
(AY160104) Dictyostelium discoideum nucleotide exchange fact...    44   3.6    1
(AY098937) Plasmodium falciparum RNA-binding protein Puf1 mR...    44   3.6    1
(AL929353) Plasmodium falciparum strain 3D7, chromosome 5, s...    44   3.6    1
(AL035475) Plasmodium falciparum MAL4P2.                           44   3.6    1
(AL034556) Plasmodium falciparum MAL3P5.                           44   3.6    1
(AJ236346) Timarcha intermedia mitochondrial partial tRNA-Le...    44   3.6    1
(AJ236345) Timarcha intermedia mitochondrial partial tRNA-Le...    44   3.6    1
(AF310892) Dictyostelium discoideum citrate synthase (gltA) ...    44   3.6    1
(AC117267) Dictyostelium discoideum chromosome 2 map 5836255...    44   3.6    1
(AC116982) Dictyostelium discoideum chromosome 2 map 3622643...    44   3.6    1
(AC115599) Dictyostelium discoideum chromosome 2 map 4229098...    44   3.6    1
(AC115584) Dictyostelium discoideum chromosome 2 map complem...    44   3.6    1
(AC080079) Homo sapiens BAC clone RP11-511B7 from 4, complet...    44   3.6    1
(AC120935) Rattus norvegicus clone CH230-339C1, WORKING DRAF...    44   3.6    1
(AC110471) Rattus norvegicus clone CH230-18L12, WORKING DRAF...    44   3.6    1
(AC097996) Rattus norvegicus clone CH230-58J16, *** SEQUENCI...    44   3.6    1
(AC094514) Rattus norvegicus clone CH230-4K15, WORKING DRAFT...    44   3.6    1
(AC094513) Rattus norvegicus clone CH230-4K14, *** SEQUENCIN...    44   3.6    1
(AC069574) Homo sapiens chromosome 4 clone RP11-267H10 map 4...    44   3.6    1
(AC219886) Bos taurus clone CH240-319G18, WORKING DRAFT SEQU...    44   3.6    1
(AC178886) Strongylocentrotus purpuratus clone R3-27K10, WOR...    44   3.6    1
(AC168710) Strongylocentrotus purpuratus clone R3-3011K15, W...    44   3.6    1
(ET969526) CHO_OF641xd02r1.ab1 CHO_OF Nicotiana tabacum geno...    44   3.6    1
(ER353982) 1092350631272 Global-Ocean-Sampling_GS-34-01-01-1...    44   3.6    1
(ER337765) 1092344320025 Global-Ocean-Sampling_GS-34-01-01-1...    44   3.6    1
(EK358061) 1095468739423 Global-Ocean-Sampling_GS-31-01-01-1...    44   3.6    1
(EK134549) 1093011956444 Global-Ocean-Sampling_GS-31-01-01-1...    44   3.6    1
(EK132288) 1093010226448 Global-Ocean-Sampling_GS-31-01-01-1...    44   3.6    1
(EJ315526) 1095403278479 Global-Ocean-Sampling_GS-27-01-01-1...    44   3.6    1
(DX580079) SBA002_A05.f Sugar beet BAC library USH20 (Code S...    44   3.6    1
(AU269154) Dictyostelium discoideum vegetative cDNA clone:VS...    44   3.6    1
(AU262547) Dictyostelium discoideum vegetative cDNA clone:VS...    44   3.6    1
(AU072635) Dictyostelium discoideum slug cDNA, clone SSA440.       44   3.6    1
(BJ369152) Dictyostelium discoideum cDNA clone:ddc49d15, 5' ...    44   3.6    1
(BJ331444) Dictyostelium discoideum cDNA clone:dda35j11, 5' ...    44   3.6    1
(BJ328719) Dictyostelium discoideum cDNA clone:dda29o03, 5' ...    44   3.6    1
(FK896295) EST_crog_evm_821128 crog_evm Caligus rogercressey...    44   3.6    1
(FK896294) EST_crog_evm_823048 crog_evm Caligus rogercressey...    44   3.6    1
(FE266289) CAZO5023.fwd CAZO Naegleria gruberi Flagellate St...    44   3.6    1
(FE237637) CAPG447.fwd CAPG Naegleria gruberi amoeba stage N...    44   3.6    1
(FE232862) CAPG1976.fwd CAPG Naegleria gruberi amoeba stage ...    44   3.6    1
(EY650724) CS00-C1-100-014-B05-CT.F Sweet orange leaf, green...    44   3.6    1

>(BJ383183) Dictyostelium discoideum cDNA clone:ddc52l02, 3' end,
           single read.
          Length = 389

 Score =  371 bits (187), Expect(2) = e-157
 Identities = 193/193 (100%)
 Strand = Plus / Minus


Query: 193 agtataatctcatctaaaaattcctcaccaagatctttanaatcaaattcattaaatgga 252
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 194 agtataatctcatctaaaaattcctcaccaagatctttanaatcaaattcattaaatgga 135


Query: 253 agtagtaaattgagaaaatcaaaaggttttaaaaaaggtgattatganaataatatagat 312
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 134 agtagtaaattgagaaaatcaaaaggttttaaaaaaggtgattatganaataatatagat 75


Query: 313 gatattgatattccaacttcatcttcaatgtgtagaagaaatacaagtaataataatagt 372
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 74  gatattgatattccaacttcatcttcaatgtgtagaagaaatacaagtaataataatagt 15


Query: 373 ttaaataatagta 385
           |||||||||||||
Sbjct: 14  ttaaataatagta 2

 Score =  220 bits (111), Expect(2) = e-157
 Identities = 123/123 (100%)
 Strand = Plus / Minus


Query: 1   gcatattactttaaaccaattgatccttcagttntagatgcantaaatggccaagctcca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 386 gcatattactttaaaccaattgatccttcagttntagatgcantaaatggccaagctcca 327


Query: 61  ncaaatatagatgaattaaattcaattgaagttgatcaacaaagattagataatganatt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 326 ncaaatatagatgaattaaattcaattgaagttgatcaacaaagattagataatganatt 267


Query: 121 gtc 123
           |||
Sbjct: 266 gtc 264

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 384,605,264
Number of extensions: 27934715
Number of successful extensions: 2265195
Number of sequences better than 10.0: 120
Length of query: 385
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 362
Effective length of database: 93,106,754,628
Effective search space: 33704645175336
Effective search space used: 33704645175336
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.11
Homology vs Protein 
Query= Contig-U14449-1 (Contig-U14449-1Q) /CSM_Contig/Contig-U14449-1Q.Seq.d
         (385 letters)

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

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

 ***** No hits found ******

Lambda     K      H
   0.315    0.134    0.392

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: 218,185,674
Number of extensions: 1483251
Number of successful extensions: 1147
Number of sequences better than 10.0: 0
Number of HSP's gapped: 1147
Number of HSP's successfully gapped: 0
Length of query: 128
Length of database: 1,051,180,864
Length adjustment: 93
Effective length of query: 35
Effective length of database: 750,180,877
Effective search space: 26256330695
Effective search space used: 26256330695
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 (21.5 bits)
S2: 29 (15.8 bits)
PSORT 

 psg: 0.66  gvh: 0.22  alm: 0.66  top: 0.53  tms: 0.00  mit: 0.19  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 

	 40.0 %: nuclear
	 28.0 %: cytoplasmic
	 16.0 %: cytoskeletal
	 16.0 %: mitochondrial

>> prediction for Contig-U14449-1 is nuc
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) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 2
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0