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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-U09307-1
Contig ID Contig-U09307-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U09307-1 (Contig-U09307-1Q) /CSM_Contig/Contig-U09307-1Q.Seq.d
ATAAAAAACTATCAAGTTATTTAAAAGAATGTAAAATATTAAAGACATAT
CCAATGATTGGTTATTTAAAGAGATTTTCAAAATTAGCGGTTATGGGTAT
TATAGTGATGATTTTTGGATATATACCATATATTGGTGATTTTGTATTAG
CAGTTGCACAATTTTATTATAGTTATAAACCGCTAGGACAAGGTACAGCA
TTCTTTTTATCATTGTTTAGTTTATATGGTCCAACCAAAGGTATGGCTGC
AAATGTTTTAAAGACATCAATGGCTGCAAATTCATTGGGTAAAGAGT---
-------ATGGGGGATATTTGGTTTTAGTATGTTATGGACAACCGTATTA
AGATTCCCATTCGTGGGCGCAATATTTTGGGGTATTGCTCAAGGTTCAAC
AGCTTTCTTAATCTTAAAACTCTTACAAAGAAATCAATTAAAATATGATA
ATCAAGAAACTCAAGTAATTTTATTAGGTCAAGATCAATTATCAGATTTT
AAAGNAGTTTTTTTTCACCACTTTTAACTTCAAAATCATTAAAATCAAAA
TCAAAATCAAAACTTAATTAAATAAATAAATAATAAATAATATTATAGTT
ATTATAATAATAATAATAATTATTAAATAAATAAAATAAATAAATAAAAT
ATTTTTTTATTTTTTTTATTTTTTTTTTTTTATGTTTAATAATTAAACCA
AAAAAAAAAAAAA
Gap gap included
Contig length 703
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 1242588
End point 1243293
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 2
Link to clone list U09307
List of clone(s) 

est1=SSB776F,1,298
est2=SSB776Z,299,705
Translated Amino Acid sequence 
KKLSSYLKECKILKTYPMIGYLKRFSKLAVMGIIVMIFGYIPYIGDFVLAVAQFYYSYKP
LGQGTAFFLSLFSLYGPTKGMAANVLKTSMAANSLGKE---

---WGIFGFSMLWTTVLRFPFVGAIFWGIAQGSTAFLILKLLQRNQLKYDNQETQVILLG
QDQLSDFKXVFFHHF*lqnh*nqnqnqnlik*innk*yysyynnnnny*inkink*nifl
fflffffyv**lnqkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
iknyqvi*knvky*rhiq*lvi*rdfqn*rlwvl***fldiyhilvily*qlhnfiivin
r*dkvqhsfyhclvymvqpkvwlqmf*rhqwlqihwvks---

---mgdiwf*yvmdnrikipirgrnilgycsrfnsflnlktltkksiki**srnssnfir
srsiirf*xsffsplltskslkskskskln*ink**iil*ll*****llnk*nk*ikyff
iffiffflcliikpkkkk

Frame B:
*ktiklfkrm*nikdisndwlfkeifkisgygyysddfwiytiyw*fcissctill*l*t
artrysilfiiv*fiwsnqrygckcfkdingckfig*r---

---WGIFGFSMLWTTVLRFPFVGAIFWGIAQGSTAFLILKLLQRNQLKYDNQETQVILLG
QDQLSDFKXVFFHHF*lqnh*nqnqnqnlik*innk*yysyynnnnny*inkink*nifl
fflffffyv**lnqkkkk

Frame C:
KKLSSYLKECKILKTYPMIGYLKRFSKLAVMGIIVMIFGYIPYIGDFVLAVAQFYYSYKP
LGQGTAFFLSLFSLYGPTKGMAANVLKTSMAANSLGKE---

---ggylvlvcygqpy*dshswaqyfgvllkvqqls*s*nsykein*nmiikklk*fy*v
kinyqilkxfffttfnfkiikikikikt*lnk*iinniiviiiiiiiik*ik*inkiffy
ffyffffmfnn*tkkkk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U09307-1 (Contig-U09307-1Q)
/CSM_Contig/Contig-U09307-1Q.Seq.d
         (713 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U09307-1 (Contig-U09307-1Q) /CSM_Contig/Conti...   940  0.0
Contig-U02891-1 (Contig-U02891-1Q) /CSM_Contig/Conti...    70  4e-12
Contig-U03751-1 (Contig-U03751-1Q) /CSM_Contig/Conti...    36  0.050
Contig-U03176-1 (Contig-U03176-1Q) /CSM_Contig/Conti...    36  0.050
Contig-U10976-1 (Contig-U10976-1Q) /CSM_Contig/Conti...    34  0.20
Contig-U10713-1 (Contig-U10713-1Q) /CSM_Contig/Conti...    34  0.20
Contig-U06393-1 (Contig-U06393-1Q) /CSM_Contig/Conti...    34  0.20
Contig-U01724-1 (Contig-U01724-1Q) /CSM_Contig/Conti...    34  0.20
Contig-U01196-1 (Contig-U01196-1Q) /CSM_Contig/Conti...    34  0.20
Contig-U13954-1 (Contig-U13954-1Q) /CSM_Contig/Conti...    32  0.78

>Contig-U09307-1 (Contig-U09307-1Q) /CSM_Contig/Contig-U09307-1Q.Seq.d
          Length = 713

 Score =  940 bits (474), Expect = 0.0
 Identities = 504/504 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   ataaaaaactatcaagttatttaaaagaatgtaaaatattaaagacatatccaatgattg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ataaaaaactatcaagttatttaaaagaatgtaaaatattaaagacatatccaatgattg 60

                                                                       
Query: 61  gttatttaaagagattttcaaaattagcggttatgggtattatagtgatgatttttggat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  gttatttaaagagattttcaaaattagcggttatgggtattatagtgatgatttttggat 120

                                                                       
Query: 121 atataccatatattggtgattttgtattagcagttgcacaattttattatagttataaac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 atataccatatattggtgattttgtattagcagttgcacaattttattatagttataaac 180

                                                                       
Query: 181 cgctaggacaaggtacagcattctttttatcattgtttagtttatatggtccaaccaaag 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 cgctaggacaaggtacagcattctttttatcattgtttagtttatatggtccaaccaaag 240

                                                                       
Query: 241 gtatggctgcaaatgttttaaagacatcaatggctgcaaattcattgggtaaagagtnnn 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 gtatggctgcaaatgttttaaagacatcaatggctgcaaattcattgggtaaagagtnnn 300

                                                                       
Query: 301 nnnnnnnatgggggatatttggttttagtatgttatggacaaccgtattaagattcccat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 nnnnnnnatgggggatatttggttttagtatgttatggacaaccgtattaagattcccat 360

                                                                       
Query: 361 tcgtgggcgcaatattttggggtattgctcaaggttcaacagctttcttaatcttaaaac 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tcgtgggcgcaatattttggggtattgctcaaggttcaacagctttcttaatcttaaaac 420

                                                                       
Query: 421 tcttacaaagaaatcaattaaaatatgataatcaagaaactcaagtaattttattaggtc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 tcttacaaagaaatcaattaaaatatgataatcaagaaactcaagtaattttattaggtc 480

                                   
Query: 481 aagatcaattatcagattttaaag 504
           ||||||||||||||||||||||||
Sbjct: 481 aagatcaattatcagattttaaag 504


 Score = 36.2 bits (18), Expect = 0.050
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                             
Query: 682 atgtttaataattaaacc 699
           ||||||||||||||||||
Sbjct: 682 atgtttaataattaaacc 699


>Contig-U02891-1 (Contig-U02891-1Q) /CSM_Contig/Contig-U02891-1Q.Seq.d
          Length = 695

 Score = 69.9 bits (35), Expect = 4e-12
 Identities = 35/35 (100%)
 Strand = Plus / Plus

                                              
Query: 1   ataaaaaactatcaagttatttaaaagaatgtaaa 35
           |||||||||||||||||||||||||||||||||||
Sbjct: 661 ataaaaaactatcaagttatttaaaagaatgtaaa 695


>Contig-U03751-1 (Contig-U03751-1Q) /CSM_Contig/Contig-U03751-1Q.Seq.d
          Length = 1211

 Score = 36.2 bits (18), Expect = 0.050
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                             
Query: 427 aaagaaatcaattaaaat 444
           ||||||||||||||||||
Sbjct: 185 aaagaaatcaattaaaat 202


 Score = 34.2 bits (17), Expect = 0.20
 Identities = 17/17 (100%)
 Strand = Plus / Plus

                            
Query: 56  gattggttatttaaaga 72
           |||||||||||||||||
Sbjct: 249 gattggttatttaaaga 265


  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: 8803
Number of Sequences: 6905
Number of extensions: 8803
Number of successful extensions: 922
Number of sequences better than 10.0: 83
length of query: 713
length of database: 5,674,871
effective HSP length: 16
effective length of query: 697
effective length of database: 5,564,391
effective search space: 3878380527
effective search space used: 3878380527
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 2008.11.15
Homology vs DNA 
Query= Contig-U09307-1 (Contig-U09307-1Q) /CSM_Contig/Contig-U09307-1Q.Seq.d
         (713 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

(AU071550) Dictyostelium discoideum slug cDNA, clone SSB776.      476   e-130  1
(AU037328) Dictyostelium discoideum slug cDNA, clone SSB776.      377   e-105  3
(BJ327737) Dictyostelium discoideum cDNA clone:dda21g17, 5' ...    72   3e-08  1
(AC141953) Rattus norvegicus clone CH230-352F14, WORKING DRA...    50   0.11   1
(DU888704) 390402 Tomato HindIII BAC Library Solanum lycoper...    50   0.11   1
(FH682069) CHO_OF5064xd09r1.ab1 CHO_OF5 Nicotiana tabacum ge...    48   0.45   1
(AX345260) Sequence 331 from Patent WO0200928.                     46   1.8    1
(AC221167) Bos taurus clone CH240-395N17, WORKING DRAFT SEQU...    46   1.8    1
(EJ976963) 1093022126002 Global-Ocean-Sampling_GS-30-02-01-1...    46   1.8    1
(EJ942846) 1093018896877 Global-Ocean-Sampling_GS-30-02-01-1...    46   1.8    1
(CJ476196) Macaca fascicularis mRNA, clone: QtrA-10248, 5' e...    46   1.8    1
(CA916249) PCSC10776 Scarlet Runner Bean Suspensor Region Tr...    46   1.8    1
(DH736316) Rattus norvegicus DNA, BAC clone: RNB1-308P15, 5'...    34   3.8    2
(EK010033) 1092955162188 Global-Ocean-Sampling_GS-31-01-01-1...    40   4.7    2
(EJ403182) 1093012067853 Global-Ocean-Sampling_GS-28-01-01-1...    38   4.7    2
(AC180893) Strongylocentrotus purpuratus clone R3-3067E06, W...    36   6.3    4
(AL772171) Mouse DNA sequence from clone RP23-36B3 on chromo...    44   7.1    1
(AC163217) Mus musculus chromosome 1, clone RP23-474A1, comp...    44   7.1    1
(AC157787) Mus musculus chromosome 1, clone RP23-158A6, comp...    44   7.1    1
(CR955004) Medicago truncatula chromosome 5 clone mte1-9e19,...    44   7.1    1
(AC164652) Ornithorhynchus anatinus BAC clone OABb-566A1 fro...    44   7.1    1
(AC125752) Rattus norvegicus clone CH230-140I15, *** SEQUENC...    44   7.1    1
(AC118244) Mus musculus clone RP23-233G10, LOW-PASS SEQUENCE...    44   7.1    1
(AC108887) Bos taurus clone RP42-14F6, WORKING DRAFT SEQUENC...    44   7.1    1
(AC073495) Mus musculus chromosome 11 clone RP23-345K4, WORK...    44   7.1    1
(CU467547) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   7.1    1
(AC221443) Bos taurus clone CH240-407G20, WORKING DRAFT SEQU...    44   7.1    1
(AC218674) Bos taurus clone CH240-298E21, WORKING DRAFT SEQU...    44   7.1    1
(AC184934) Bos taurus clone CH240-280G4, WORKING DRAFT SEQUE...    44   7.1    1
(AC179574) Strongylocentrotus purpuratus clone R3-1029O19, W...    44   7.1    1
(AC165762) Bos taurus clone CH240-162D18, WORKING DRAFT SEQU...    44   7.1    1
(AC164262) Bos taurus clone CH240-135D18, *** SEQUENCING IN ...    44   7.1    1
(EK353800) 1095468298473 Global-Ocean-Sampling_GS-31-01-01-1...    44   7.1    1
(DU729478) Ynhw18264 HW-YUBAC Bos taurus genomic clone HW-YU...    44   7.1    1
(AG566099) Mus musculus molossinus DNA, clone:MSMg01-487A15....    44   7.1    1
(CC777251) ZMMBBc0428H04f ZMMBBc Zea mays subsp. mays genomi...    44   7.1    1
(CC481192) CH240_309O1.T7 CHORI-240 Bos taurus genomic clone...    44   7.1    1
(BH767090) BMBAC346F11SP6_PSU Brugia malayi Genomic Bac Libr...    44   7.1    1
(BH753017) SALK_019654.56.00.x Arabidopsis thaliana TDNA ins...    44   7.1    1
(CT780776) Paramecium tetraurelia 5-PRIME EST from clone LK0...    44   7.1    1
(CO886873) BovGen_15198 normal cattle brain Bos taurus cDNA ...    44   7.1    1
(AM018927) Bos taurus 5' EST, clone C0007415j20.                   44   7.1    1
(AM013820) Bos sp. 5' EST, clone C0007415h20.                      44   7.1    1
(FG885917) UCRVU07_CCNP16791_g1 Cowpea UCR 779 Mixed Tissue ...    44   7.1    1
(FE693725) Pv016C_M13R_G03.ab1 Phaseolus vulgaris cv Early g...    44   7.1    1
(EY820106) PT11-C1-901-012-E05-CT.F Poncirus trifoliata leaf...    44   7.1    1
(AC024106) Homo sapiens 3 BAC RP11-33K7 (Roswell Park Cancer...    36   8.2    4
(AC198167) MACACA MULATTA BAC clone CH250-222E8 from chromos...    38   9.2    3

>(AU071550) Dictyostelium discoideum slug cDNA, clone SSB776.
          Length = 240

 Score =  476 bits (240), Expect = e-130
 Identities = 240/240 (100%)
 Strand = Plus / Plus


Query: 1   ataaaaaactatcaagttatttaaaagaatgtaaaatattaaagacatatccaatgattg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ataaaaaactatcaagttatttaaaagaatgtaaaatattaaagacatatccaatgattg 60


Query: 61  gttatttaaagagattttcaaaattagcggttatgggtattatagtgatgatttttggat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  gttatttaaagagattttcaaaattagcggttatgggtattatagtgatgatttttggat 120


Query: 121 atataccatatattggtgattttgtattagcagttgcacaattttattatagttataaac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 atataccatatattggtgattttgtattagcagttgcacaattttattatagttataaac 180


Query: 181 cgctaggacaaggtacagcattctttttatcattgtttagtttatatggtccaaccaaag 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 cgctaggacaaggtacagcattctttttatcattgtttagtttatatggtccaaccaaag 240

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 666,180,344
Number of extensions: 40239362
Number of successful extensions: 3193645
Number of sequences better than 10.0: 48
Length of query: 713
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 689
Effective length of database: 97,308,875,965
Effective search space: 67045815539885
Effective search space used: 67045815539885
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.25
Homology vs Protein 
Query= Contig-U09307-1 (Contig-U09307-1Q) /CSM_Contig/Contig-U09307-1Q.Seq.d
         (713 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BX088700_84(BX088700|pid:none) DNA centromeric region sequence f...    70   6e-11
AM270133_17(AM270133|pid:none) Aspergillus niger contig An07c016...    52   2e-05
CP000472_1852(CP000472|pid:none) Shewanella piezotolerans WP3, c...    43   0.011
CP000931_2580(CP000931|pid:none) Shewanella halifaxensis HAW-EB4...    41   0.032
CP000961_2865(CP000961|pid:none) Shewanella woodyi ATCC 51908, c...    41   0.041
CP000851_1660(CP000851|pid:none) Shewanella pealeana ATCC 700345...    40   0.054
CR382129_778(CR382129|pid:none) Yarrowia lipolytica strain CLIB1...    39   0.16
AP006627_1721(AP006627|pid:none) Bacillus clausii KSM-K16 DNA, c...    38   0.35
CP000936_1923(CP000936|pid:none) Streptococcus pneumoniae Hungar...    37   0.59
CP000918_1950(CP000918|pid:none) Streptococcus pneumoniae 70585,...    37   0.59
CP000514_2920(CP000514|pid:none) Marinobacter aquaeolei VT8, com...    35   2.9
AE010299_2559(AE010299|pid:none) Methanosarcina acetivorans str....    34   3.9
(Q9P3K8) RecName: Full=Probable transporter MCH1;  &AL389900_3(A...    34   5.0
CP001110_2521(CP001110|pid:none) Pelodictyon phaeoclathratiforme...    33   6.6
CP000783_736(CP000783|pid:none) Enterobacter sakazakii ATCC BAA-...    33   6.6

>BX088700_84(BX088700|pid:none) DNA centromeric region sequence from
           BAC DP26B06, DP34F04, DP16D11, DP09G08, DP35C12 of
           chromosome 5  of Podospora anserina.
          Length = 379

 Score = 70.1 bits (170), Expect = 6e-11
 Identities = 41/139 (29%), Positives = 68/139 (48%), Gaps = 19/139 (13%)
 Frame = +3

Query: 63  YLKRFSKLAVMGIIVMIFGYIPYIGDFVLAVAQFYYSYKPLGQGTA-------------F 203
           +L RF++   + + V +  Y+PY+G FVL  A FY   K +G G A             +
Sbjct: 183 FLFRFARRGAISLGVFLLSYLPYVGRFVLPAASFYTFNKAVGLGPAGIIFGTGILLPRRY 242

Query: 204 FLSLFSLYGPTKGMAANVLKTSMAANSLGKEXXXXWG------IFGFSMLWTTVLRFPFV 365
            +     Y  ++G+   +L+   A     KE    W       +FGF + + T+L+ P +
Sbjct: 243 LVIFLQSYFASRGLVRELLEPYFARIKFTKEQKKQWFRSREGLLFGFGIGFYTLLKTPLL 302

Query: 366 GAIFWGIAQGSTAFLILKL 422
           G + +GIA+ STA+LI K+
Sbjct: 303 GVLIYGIAEASTAYLITKI 321

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: 3204285
Number of Hits to DB: 838,093,678
Number of extensions: 15952426
Number of successful extensions: 38939
Number of sequences better than 10.0: 15
Number of HSP's gapped: 38918
Number of HSP's successfully gapped: 15
Length of query: 237
Length of database: 1,040,966,779
Length adjustment: 125
Effective length of query: 112
Effective length of database: 640,431,154
Effective search space: 71728289248
Effective search space used: 71728289248
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: 0.79  gvh: 0.34  alm: 0.25  top: 0.27  tms: 0.07  mit: 0.21  mip: 0.23
 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: 1.00  tyr: 0.54  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 24.0 %: endoplasmic reticulum
	 20.0 %: mitochondrial
	 20.0 %: cytoplasmic
	 16.0 %: nuclear
	  8.0 %: Golgi
	  8.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U09307-1 is end
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) 1
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