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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U03981-1
Contig ID Contig-U03981-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U03981-1 (Contig-U03981-1Q) /CSM_Contig/Contig-U03981-1Q.Seq.d
ATCTGCTGGTCCAGATAATATTTTAGGTACAACTCCAACTGGTATTAGTA
GTAGTGGCGGTGGTTTAACTTCATTATTAAATCAAAACCTTTCATCCATT
ATGTCATTATCAAATAGTAATACACCACCAGCATCACCAAGAGTAATGAC
TACACCAACATTACCATCTCCACCAGCTCCATTACAATCTCCACCAACCA
GTGGTATTAGTTCACCAACAACAACAACATCAACAACAACTGAT
Gap no gap
Contig length 244
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 4904510
End point 4904754
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U03981
List of clone(s) 

est1=SLD658F,1,245
Translated Amino Acid sequence 
SAGPDNILGTTPTGISSSGGGLTSLLNQNLSSIMSLSNSNTPPASPRVMTTPTLPSPPAP
LQSPPTSGISSPTTTTSTTTD
Translated Amino Acid sequence (All Frames) 
Frame A:
icwsr*yfrynsnwy***wrwfnfiikskpfihyviik**yttsitksndytnitistss
itistnqwy*ftnnnninnn*


Frame B:
SAGPDNILGTTPTGISSSGGGLTSLLNQNLSSIMSLSNSNTPPASPRVMTTPTLPSPPAP
LQSPPTSGISSPTTTTSTTTD


Frame C:
llvqiif*vqlqlvlvvvavv*lhy*iktfhplchyqivihhqhhqe**lhqhyhlhqlh
ynlhqpvvlvhqqqqhqqql
own update 2004. 6. 9
Homology vs CSM-cDNA 
Query= Contig-U03981-1 (Contig-U03981-1Q)
/CSM_Contig/Contig-U03981-1Q.Seq.d
         (244 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U03981-1 (Contig-U03981-1Q) /CSM_Contig/Conti...   426  e-120
Contig-U11601-1 (Contig-U11601-1Q) /CSM_Contig/Conti...    44  7e-05
Contig-U12855-1 (Contig-U12855-1Q) /CSM_Contig/Conti...    38  0.004
Contig-U12007-1 (Contig-U12007-1Q) /CSM_Contig/Conti...    38  0.004
Contig-U06812-1 (Contig-U06812-1Q) /CSM_Contig/Conti...    38  0.004
Contig-U14272-1 (Contig-U14272-1Q) /CSM_Contig/Conti...    36  0.016
Contig-U11853-1 (Contig-U11853-1Q) /CSM_Contig/Conti...    36  0.016
Contig-U02860-1 (Contig-U02860-1Q) /CSM_Contig/Conti...    36  0.016
Contig-U13594-1 (Contig-U13594-1Q) /CSM_Contig/Conti...    34  0.065
Contig-U13537-1 (Contig-U13537-1Q) /CSM_Contig/Conti...    34  0.065

>Contig-U03981-1 (Contig-U03981-1Q) /CSM_Contig/Contig-U03981-1Q.Seq.d
          Length = 244

 Score =  426 bits (215), Expect = e-120
 Identities = 215/215 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   atctgctggtccagataatattttaggtacaactccaactggtattagtagtagtggcgg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   atctgctggtccagataatattttaggtacaactccaactggtattagtagtagtggcgg 60

                                                                       
Query: 61  tggtttaacttcattattaaatcaaaacctttcatccattatgtcattatcaaatagtaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tggtttaacttcattattaaatcaaaacctttcatccattatgtcattatcaaatagtaa 120

                                                                       
Query: 121 tacaccaccagcatcaccaagagtaatgactacaccaacattaccatctccaccagctcc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tacaccaccagcatcaccaagagtaatgactacaccaacattaccatctccaccagctcc 180

                                              
Query: 181 attacaatctccaccaaccagtggtattagttcac 215
           |||||||||||||||||||||||||||||||||||
Sbjct: 181 attacaatctccaccaaccagtggtattagttcac 215


>Contig-U11601-1 (Contig-U11601-1Q) /CSM_Contig/Contig-U11601-1Q.Seq.d
          Length = 1232

 Score = 44.1 bits (22), Expect = 7e-05
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 43  tattagtagtagtggcggtggt 64
           ||||||||||||||||||||||
Sbjct: 279 tattagtagtagtggcggtggt 300


>Contig-U12855-1 (Contig-U12855-1Q) /CSM_Contig/Contig-U12855-1Q.Seq.d
          Length = 720

 Score = 38.2 bits (19), Expect = 0.004
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 104 tcattatcaaatagtaata 122
           |||||||||||||||||||
Sbjct: 488 tcattatcaaatagtaata 506


  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: 3092
Number of Sequences: 6905
Number of extensions: 3092
Number of successful extensions: 1091
Number of sequences better than 10.0: 140
length of query: 244
length of database: 5,674,871
effective HSP length: 15
effective length of query: 229
effective length of database: 5,571,296
effective search space: 1275826784
effective search space used: 1275826784
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 2009. 6.10
Homology vs DNA 
Query= Contig-U03981-1 (Contig-U03981-1Q) /CSM_Contig/Contig-U03981-1Q.Seq.d
         (244 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

(AF481923) Dictyostelium discoideum cyclic GMP-binding prote...   426   e-115  1
(AU061275) Dictyostelium discoideum slug cDNA, clone SLD658.      426   e-115  1
(BJ396374) Dictyostelium discoideum cDNA clone:dds42o17, 5' ...    44   0.43   2
(AC202332) Medicago truncatula chromosome 6 clone mth2-177b1...    46   0.59   1
(CG965232) MBEBN04TF mth2 Medicago truncatula genomic clone ...    46   0.59   1
(CG940455) MBEHW34TF mth2 Medicago truncatula genomic clone ...    46   0.59   1
(AP007169) Aspergillus oryzae RIB40 genomic DNA, SC038.            32   1.1    2
(AC207299) Homo sapiens chromosome 17 clone ABC9-45392900D8,...    42   1.1    2
(AZ529691) ENTBG65TR Entamoeba histolytica Sheared DNA Entam...    32   1.6    2
(AZ668127) ENTFZ58TR Entamoeba histolytica Sheared DNA Entam...    32   1.6    2
(AZ680928) ENTME01TF Entamoeba histolytica Sheared DNA Entam...    32   1.6    2
(CK809343) Rasgsc2815 Salivary Gland 4th instar 3rd period (...    36   1.6    2
(CV022553) Rasgscb0138 Salivary Gland 4th instar 3rd period ...    36   1.6    2
(AQ935466) CpG2486B CpIOWAgDNA1 Cryptosporidium parvum genom...    42   1.7    2
(AC117176) Dictyostelium discoideum chromosome 2 map 5018074...    44   2.3    1
(CU681847) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   2.3    1
(CU469193) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   2.3    1
(ET070751) QM0AAA4CC01FM1 CCL1 Citrus clementina genomic clo...    44   2.3    1
(ED470611) AUAC-aaa48b02.b1 Ascaris suum whole genome shotgu...    44   2.3    1
(ED240392) AUAC-aan39b05.b1 Ascaris suum whole genome shotgu...    44   2.3    1
(BJ361207) Dictyostelium discoideum cDNA clone:ddc16n04, 5' ...    44   2.3    1
(AC198950) Macaca mulatta clone CH250-181A4, WORKING DRAFT S...    34   4.4    2
(AB030033) Dictyostelium discoideum gene for AmiB, complete ...    34   4.5    3
(EH430938) OL989R Brassica oleracea var. alboglabra leaf cDN...    34   4.6    2
(CR542760) Pongo abelii mRNA; EST DKFZp459G2440_r1 (from clo...    36   4.9    2
(CB552174) MMSP0003_A05 MMSP Macaca mulatta cDNA, mRNA seque...    36   5.3    2
(EY343655) CAWZ12625.fwd CAWZ Helobdella robusta Primary Lat...    32   5.9    2
(EH693118) CCIM5169.b1_B21.ab1 CCI(LMS) chicory Cichorium in...    34   5.9    2
(ET529548) fcg3x.225950m14 C. graminicola genomic sequence G...    32   6.0    2
(BG572744) 602594266F1 NIH_MGC_79 Homo sapiens cDNA clone IM...    36   6.2    2
(BM423162) PLATE3_A05 Rhesus Macaca mulatta cDNA, mRNA seque...    36   6.2    2
(AC137896) Homo sapiens chromosome 17, clone RP11-765O14, co...    42   7.1    3
(AC180983) Strongylocentrotus purpuratus clone R3-3058K13, W...    38   8.6    2
(CU463282) Zebrafish DNA sequence from clone CH211-176J8 in ...    42   9.2    1
(CR388085) Zebrafish DNA sequence from clone CH211-232D10.         42   9.2    1
(BX321873) Zebrafish DNA sequence from clone DKEY-151G22 in ...    42   9.2    1
(EZ000179) TSA: Schistosoma japonicum SJCHGC01359 unknown mRNA.    42   9.2    1
(CR382122) Kluyveromyces lactis strain NRRL Y-1140 chromosom...    42   9.2    1
(AC221036) Homo sapiens FOSMID clone ABC12-7919749F16 from c...    42   9.2    1
(AC135029) Rattus norvegicus clone CH230-121K16, *** SEQUENC...    42   9.2    1
(AC125551) Rattus norvegicus clone CH230-7J22, *** SEQUENCIN...    42   9.2    1
(CT737212) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   9.2    1
(BX649453) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   9.2    1
(BX323466) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   9.2    1
(AY811479) Schistosoma japonicum clone SJCHGC01360 unknown m...    42   9.2    1
(AY223389) Schistosoma japonicum clone ZZZ288 mRNA sequence.       42   9.2    1
(ER833454) PPTIN41TR Solanum tuberosum RHPOTKEY BAC ends Sol...    42   9.2    1
(ER789829) PPTF747TR Solanum tuberosum RHPOTKEY BAC ends Sol...    42   9.2    1
(EJ598159) 1092961109628 Global-Ocean-Sampling_GS-29-01-01-1...    42   9.2    1
(AL428203) clone BA0AB024D02 of library BA0AB from strain CL...    42   9.2    1
(DH586077) Rattus norvegicus DNA, BAC clone: RNB1-106M14, 5'...    42   9.2    1
(CL295833) ZMMBBb0027P10f ZMMBBb (HindIII) Zea mays subsp. m...    42   9.2    1
(BX232600) Danio rerio genomic clone DKEY-249N20, genomic su...    42   9.2    1
(DB612055) Halocynthia roretzi cDNA clone:mae28f05, 5' end.        42   9.2    1
(DB605767) Halocynthia roretzi cDNA clone:mae3b12, 5' end.         42   9.2    1
(DB582416) Halocynthia roretzi cDNA clone:ma314b13, 5' end.        42   9.2    1
(CV758277) sjl9-007_C01_sjl9-007C01-T3_002.ab1 SJL Schistoso...    42   9.2    1
(CV753690) SJL9-005_D10_SJL9-005D10-T3_090.ab1 SJL Schistoso...    42   9.2    1
(CV753660) SJL9-005_B02_SJL9-005B02-T3_013.ab1 SJL Schistoso...    42   9.2    1
(CV753614) SJL9-004_E09_SJL9-004E09-T3_071.ab1 SJL Schistoso...    42   9.2    1
(CV697753) SJS_033_74.T3 SJS Schistosoma japonicum cDNA, mRN...    42   9.2    1
(CV696899) SJS_028_35.T3 SJS Schistosoma japonicum cDNA, mRN...    42   9.2    1
(CV690970) sjs7-011_A06_sjs7-011A06-T3 SJS Schistosoma japon...    42   9.2    1
(CV690487) sjs7-005_A06_sjs7-005A06-T3 SJS Schistosoma japon...    42   9.2    1
(CV690342) sjs7-003_D04_sjs7-003D04-T3 SJS Schistosoma japon...    42   9.2    1
(CV690243) sjs7-002_B06_sjs7-002B06-T3 SJS Schistosoma japon...    42   9.2    1
(CV689511) sjs5-007_C11_sjs5-007C11-T3 SJS Schistosoma japon...    42   9.2    1
(CV688643) sjs4-002_F06_sjs7-002A06-T3 SJS Schistosoma japon...    42   9.2    1
(CV687316) sjs2-15-10_A12_sjs2-15-10A12-T3 SJS Schistosoma j...    42   9.2    1
(CV685895) sjs2-008_E11_sjs2-008E11-T3 SJS Schistosoma japon...    42   9.2    1
(CV685821) sjs2-007_F10_sjs2-007F10-T3 SJS Schistosoma japon...    42   9.2    1
(CV682870) service31_E03_sjs2-14-10E03-T3 SJS Schistosoma ja...    42   9.2    1
(CV682188) sjs6-009_B08_sjs6-009B08-T3 SJS Schistosoma japon...    42   9.2    1
(CV367031) PM2-BT0723-060900-001-a04 BT0723 Homo sapiens cDN...    42   9.2    1
(CV367020) PM2-BT0723-030201-007-a04 BT0723 Homo sapiens cDN...    42   9.2    1
(CV367009) PM2-BT0723-030201-006-a04 BT0723 Homo sapiens cDN...    42   9.2    1
(CJ672072) Triticum aestivum cDNA clone whkv8e22 5', Y.Ogiha...    42   9.2    1
(BU803994) SJFBFE03 SJF Schistosoma japonicum cDNA similar t...    42   9.2    1
(BU801936) SJFAAF04 SJF Schistosoma japonicum cDNA similar t...    42   9.2    1
(BU768293) SJEBIC09 SJE Schistosoma japonicum cDNA similar t...    42   9.2    1
(FC699683) CAXX7827.rev CAXX Lottia gigantea from male gonad...    42   9.2    1
(FC691344) CAXX2528.rev CAXX Lottia gigantea from male gonad...    42   9.2    1
(FC681932) CAXX1590.rev CAXX Lottia gigantea from male gonad...    42   9.2    1
(CU633751) Cupriavidus taiwanensis str. LMG19424 plasmid pRA...    42   9.2    1

>(AF481923) Dictyostelium discoideum cyclic GMP-binding protein C
            (gbpC) gene, complete cds.
          Length = 8125

 Score =  426 bits (215), Expect = e-115
 Identities = 215/215 (100%)
 Strand = Plus / Plus


Query: 1    atctgctggtccagataatattttaggtacaactccaactggtattagtagtagtggcgg 60
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6670 atctgctggtccagataatattttaggtacaactccaactggtattagtagtagtggcgg 6729


Query: 61   tggtttaacttcattattaaatcaaaacctttcatccattatgtcattatcaaatagtaa 120
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6730 tggtttaacttcattattaaatcaaaacctttcatccattatgtcattatcaaatagtaa 6789


Query: 121  tacaccaccagcatcaccaagagtaatgactacaccaacattaccatctccaccagctcc 180
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6790 tacaccaccagcatcaccaagagtaatgactacaccaacattaccatctccaccagctcc 6849


Query: 181  attacaatctccaccaaccagtggtattagttcac 215
            |||||||||||||||||||||||||||||||||||
Sbjct: 6850 attacaatctccaccaaccagtggtattagttcac 6884

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 244,863,436
Number of extensions: 14483560
Number of successful extensions: 4015064
Number of sequences better than 10.0: 84
Length of query: 244
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 221
Effective length of database: 99,442,330,388
Effective search space: 21976755015748
Effective search space used: 21976755015748
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.29
Homology vs Protein 
Query= Contig-U03981-1 (Contig-U03981-1Q) /CSM_Contig/Contig-U03981-1Q.Seq.d
         (244 letters)

Database: nrp_A
           3,268,448 sequences; 1,061,185,681 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: 3268448
Number of Hits to DB: 173,261,045
Number of extensions: 1423384
Number of successful extensions: 1001
Number of sequences better than 10.0: 0
Number of HSP's gapped: 1001
Number of HSP's successfully gapped: 0
Length of query: 81
Length of database: 1,061,185,681
Length adjustment: 51
Effective length of query: 30
Effective length of database: 894,494,833
Effective search space: 26834844990
Effective search space used: 26834844990
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: 27 (15.0 bits)
PSORT 

 psg: 0.75  gvh: 0.49  alm: 0.51  top: 0.53  tms: 0.00  mit: 0.53  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 

	 72.0 %: mitochondrial
	 16.0 %: nuclear
	  8.0 %: cytoplasmic
	  4.0 %: cytoskeletal

>> prediction for Contig-U03981-1 is mit
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 1
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