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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-U10615-1
Contig ID Contig-U10615-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U10615-1 (Contig-U10615-1Q) /CSM_Contig/Contig-U10615-1Q.Seq.d
NNNNNNNNNNACAACCANAAAANATTTCCGNATCATCACATGNATGGANA
TCNCCNAATGNATTCAATTCATCNTTTGGGATCCNTNTGANATTACNCCN
ACNTCCNCTGGNGNANANTCAATCCCTTTANCAAAACCNNANGCTGGNTG
GANAGCNTTNTTCCNTGAAGCTGAANATTTANATGCTAAAAANTCNANCG
ATGATGAANAAACNCTTAAATTCNCNTCTGAAGNTGCCNTTGGACCAAAA
ACNTTACCNNTC
Gap no gap
Contig length 262
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 1
Link to clone list U10615
List of clone(s) 

est1=VFI718Z,1,253
Translated Amino Acid sequence 
XXXTTXKXFRIITXMXIXXXIQFIXWDPXXITPTSXGXXSIPLXKPXAGWXAXFXEAEXL
XAKXSXDDEXTLKFXSEXAXGPKTLPX
Translated Amino Acid sequence (All Frames) 
Frame A:
xxxxnxkxfpxhhmxgxxxmxsihxlgsx*xyxxxxwxxxnpfxktxxwxxsxxp*s*xf
xc*kxxr**xnx*ixx*xcxwtknxtx


Frame B:
XXXTTXKXFRIITXMXIXXXIQFIXWDPXXITPTSXGXXSIPLXKPXAGWXAXFXEAEXL
XAKXSXDDEXTLKFXSEXAXGPKTLPX


Frame C:
xxxqpxxisxsshxwxspnxfnssfgixxxlxxxplxxxqslxqnxxlxgxxxsxklxix
mlkxxxmmxkxlnsxlkxpldqkxyx
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U10615-1 (Contig-U10615-1Q)
/CSM_Contig/Contig-U10615-1Q.Seq.d
         (262 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U10615-1 (Contig-U10615-1Q) /CSM_Contig/Conti...   248  2e-66
Contig-U10644-1 (Contig-U10644-1Q) /CSM_Contig/Conti...   188  2e-48

>Contig-U10615-1 (Contig-U10615-1Q) /CSM_Contig/Contig-U10615-1Q.Seq.d
          Length = 262

 Score =  248 bits (125), Expect = 2e-66
 Identities = 248/248 (100%)
 Strand = Plus / Plus

                                                                       
Query: 11  acaaccanaaaanatttccgnatcatcacatgnatgganatcnccnaatgnattcaattc 70
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 11  acaaccanaaaanatttccgnatcatcacatgnatgganatcnccnaatgnattcaattc 70

                                                                       
Query: 71  atcntttgggatccntntganattacnccnacntccnctggngnanantcaatcccttta 130
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71  atcntttgggatccntntganattacnccnacntccnctggngnanantcaatcccttta 130

                                                                       
Query: 131 ncaaaaccnnangctggntgganagcnttnttccntgaagctgaanatttanatgctaaa 190
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 131 ncaaaaccnnangctggntgganagcnttnttccntgaagctgaanatttanatgctaaa 190

                                                                       
Query: 191 aantcnancgatgatgaanaaacncttaaattcncntctgaagntgccnttggaccaaaa 250
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 191 aantcnancgatgatgaanaaacncttaaattcncntctgaagntgccnttggaccaaaa 250

                   
Query: 251 acnttacc 258
           ||||||||
Sbjct: 251 acnttacc 258


>Contig-U10644-1 (Contig-U10644-1Q) /CSM_Contig/Contig-U10644-1Q.Seq.d
          Length = 223

 Score =  188 bits (95), Expect = 2e-48
 Identities = 203/212 (95%)
 Strand = Plus / Plus

                                                                       
Query: 12  caaccanaaaanatttccgnatcatcacatgnatgganatcnccnaatgnattcaattca 71
           |||||||||||||||||||||||||| || ||||||||||||||||| ||||||||||||
Sbjct: 11  caaccanaaaanatttccgnatcatcncangnatgganatcnccnaangnattcaattca 70

                                                                       
Query: 72  tcntttgggatccntntganattacnccnacntccnctggngnanantcaatccctttan 131
           |||||||||||||||||||||||||||| || |||||||||||||| |||||||||||||
Sbjct: 71  tcntttgggatccntntganattacnccaacttccnctggngnanattcaatccctttan 130

                                                                       
Query: 132 caaaaccnnangctggntgganagcnttnttccntgaagctgaanatttanatgctaaaa 191
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 131 caaaaccnnangctggntgganagcnttcttccntgaagctgaanatttanatgctaaaa 190

                                           
Query: 192 antcnancgatgatgaanaaacncttaaattc 223
           | |||| |||||||||||||||||||||||||
Sbjct: 191 attcnatcgatgatgaanaaacncttaaattc 222


  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: 125
Number of Sequences: 6905
Number of extensions: 125
Number of successful extensions: 18
Number of sequences better than 10.0: 2
length of query: 262
length of database: 5,674,871
effective HSP length: 15
effective length of query: 247
effective length of database: 5,571,296
effective search space: 1376110112
effective search space used: 1376110112
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 2008.11.20
Homology vs DNA 
Query= Contig-U10615-1 (Contig-U10615-1Q) /CSM_Contig/Contig-U10615-1Q.Seq.d
         (262 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

(BJ432212) Dictyostelium discoideum cDNA clone:ddv18d05, 3' ...   248   8e-62  1
(BJ432351) Dictyostelium discoideum cDNA clone:ddv18n12, 3' ...   234   1e-57  1
(BJ431046) Dictyostelium discoideum cDNA clone:ddv9o14, 3' e...   224   1e-54  1
(BJ428550) Dictyostelium discoideum cDNA clone:ddv12k10, 3' ...   224   1e-54  1
(BJ430037) Dictyostelium discoideum cDNA clone:ddv5i22, 3' e...   216   3e-52  1
(BJ428042) Dictyostelium discoideum cDNA clone:ddv10f15, 3' ...   216   3e-52  1
(AY750687) Dictyostelium discoideum AprA (aprA) gene, comple...   208   7e-50  1
(C92191) Dictyostelium discoideum slug cDNA, clone SSD213.        208   7e-50  1
(BJ435804) Dictyostelium discoideum cDNA clone:ddv28p07, 3' ...   208   7e-50  1
(BJ435661) Dictyostelium discoideum cDNA clone:ddv27g19, 3' ...   208   7e-50  1
(BJ435657) Dictyostelium discoideum cDNA clone:ddv27f21, 3' ...   208   7e-50  1
(BJ435354) Dictyostelium discoideum cDNA clone:ddv26j21, 3' ...   208   7e-50  1
(BJ435009) Dictyostelium discoideum cDNA clone:ddv25c20, 3' ...   208   7e-50  1
(BJ434523) Dictyostelium discoideum cDNA clone:ddv24j03, 3' ...   208   7e-50  1
(BJ434102) Dictyostelium discoideum cDNA clone:ddv23k23, 3' ...   208   7e-50  1
(BJ433940) Dictyostelium discoideum cDNA clone:ddv23l10, 3' ...   208   7e-50  1
(BJ433841) Dictyostelium discoideum cDNA clone:ddv23h05, 3' ...   208   7e-50  1
(BJ433723) Dictyostelium discoideum cDNA clone:ddv22b22, 3' ...   208   7e-50  1
(BJ433257) Dictyostelium discoideum cDNA clone:ddv21b11, 3' ...   208   7e-50  1
(BJ432521) Dictyostelium discoideum cDNA clone:ddv18n21, 3' ...   208   7e-50  1
(BJ432477) Dictyostelium discoideum cDNA clone:ddv18e24, 3' ...   208   7e-50  1
(BJ432420) Dictyostelium discoideum cDNA clone:ddv18k13, 3' ...   208   7e-50  1
(BJ432208) Dictyostelium discoideum cDNA clone:ddv18d01, 3' ...   208   7e-50  1
(BJ431631) Dictyostelium discoideum cDNA clone:ddv14l23, 3' ...   208   7e-50  1
(BJ431473) Dictyostelium discoideum cDNA clone:ddv14e10, 3' ...   208   7e-50  1
(BJ431448) Dictyostelium discoideum cDNA clone:ddv14p01, 3' ...   208   7e-50  1
(BJ431361) Dictyostelium discoideum cDNA clone:ddv13l20, 3' ...   208   7e-50  1
(BJ430941) Dictyostelium discoideum cDNA clone:ddv9h08, 3' e...   208   7e-50  1
(BJ430887) Dictyostelium discoideum cDNA clone:ddv9l03, 3' e...   208   7e-50  1
(BJ430442) Dictyostelium discoideum cDNA clone:ddv7d09, 3' e...   208   7e-50  1
(BJ430380) Dictyostelium discoideum cDNA clone:ddv7f01, 3' e...   208   7e-50  1
(BJ430374) Dictyostelium discoideum cDNA clone:ddv7d06, 3' e...   208   7e-50  1
(BJ430139) Dictyostelium discoideum cDNA clone:ddv6p02, 3' e...   208   7e-50  1
(BJ429262) Dictyostelium discoideum cDNA clone:ddv2j22, 3' e...   208   7e-50  1
(BJ429068) Dictyostelium discoideum cDNA clone:ddv2b12, 3' e...   208   7e-50  1
(BJ428898) Dictyostelium discoideum cDNA clone:ddv1k14, 3' e...   208   7e-50  1
(BJ428328) Dictyostelium discoideum cDNA clone:ddv11e14, 3' ...   208   7e-50  1
(BJ428183) Dictyostelium discoideum cDNA clone:ddv11d03, 3' ...   208   7e-50  1
(BJ428054) Dictyostelium discoideum cDNA clone:ddv10h18, 3' ...   208   7e-50  1
(BJ341354) Dictyostelium discoideum cDNA clone:dda6e12, 3' e...   208   7e-50  1
(BJ429877) Dictyostelium discoideum cDNA clone:ddv5o02, 3' e...   204   1e-48  1
(BJ432716) Dictyostelium discoideum cDNA clone:ddv19d15, 3' ...   202   4e-48  1
(BJ427977) Dictyostelium discoideum cDNA clone:ddv10e11, 3' ...   202   4e-48  1
(BJ428673) Dictyostelium discoideum cDNA clone:ddv12f21, 3' ...   200   2e-47  1
(BJ428313) Dictyostelium discoideum cDNA clone:ddv11a16, 3' ...   200   2e-47  1
(BJ429833) Dictyostelium discoideum cDNA clone:ddv5d04, 3' e...   196   3e-46  1
(BJ431848) Dictyostelium discoideum cDNA clone:ddv15e21, 3' ...   194   1e-45  1
(BJ434630) Dictyostelium discoideum cDNA clone:ddv24a15, 3' ...   188   6e-44  1
(BJ432111) Dictyostelium discoideum cDNA clone:ddv17m16, 3' ...   184   1e-42  1
(BJ432473) Dictyostelium discoideum cDNA clone:ddv18e19, 3' ...   182   4e-42  1
(BJ429251) Dictyostelium discoideum cDNA clone:ddv2h21, 3' e...   165   9e-37  1
(BJ429135) Dictyostelium discoideum cDNA clone:ddv2p09, 3' e...   165   9e-37  1
(BJ432006) Dictyostelium discoideum cDNA clone:ddv17f09, 3' ...   159   6e-35  1
(BJ399790) Dictyostelium discoideum cDNA clone:dds7b15, 3' e...   159   6e-35  1
(BJ430893) Dictyostelium discoideum cDNA clone:ddv9m05, 3' e...   147   2e-31  1
(BJ433033) Dictyostelium discoideum cDNA clone:ddv20g13, 3' ...   131   1e-26  1
(AU271065) Dictyostelium discoideum vegetative cDNA clone:VS...   121   1e-23  1
(BJ429584) Dictyostelium discoideum cDNA clone:ddv4e04, 3' e...    86   7e-13  1

>(BJ432212) Dictyostelium discoideum cDNA clone:ddv18d05, 3' end,
           single read.
          Length = 253

 Score =  248 bits (125), Expect = 8e-62
 Identities = 248/248 (100%)
 Strand = Plus / Minus


Query: 11  acaaccanaaaanatttccgnatcatcacatgnatgganatcnccnaatgnattcaattc 70
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 253 acaaccanaaaanatttccgnatcatcacatgnatgganatcnccnaatgnattcaattc 194


Query: 71  atcntttgggatccntntganattacnccnacntccnctggngnanantcaatcccttta 130
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 193 atcntttgggatccntntganattacnccnacntccnctggngnanantcaatcccttta 134


Query: 131 ncaaaaccnnangctggntgganagcnttnttccntgaagctgaanatttanatgctaaa 190
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 133 ncaaaaccnnangctggntgganagcnttnttccntgaagctgaanatttanatgctaaa 74


Query: 191 aantcnancgatgatgaanaaacncttaaattcncntctgaagntgccnttggaccaaaa 250
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73  aantcnancgatgatgaanaaacncttaaattcncntctgaagntgccnttggaccaaaa 14


Query: 251 acnttacc 258
           ||||||||
Sbjct: 13  acnttacc 6

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 43,215,778
Number of extensions: 2382730
Number of successful extensions: 17342
Number of sequences better than 10.0: 58
Length of query: 262
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 239
Effective length of database: 93,106,754,628
Effective search space: 22252514356092
Effective search space used: 22252514356092
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 6.28
Homology vs Protein 
Query= Contig-U10615-1 (Contig-U10615-1Q) /CSM_Contig/Contig-U10615-1Q.Seq.d
         (262 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q5XM24) RecName: Full=Autocrine proliferation repressor; AltNam...   100   2e-20

>(Q5XM24) RecName: Full=Autocrine proliferation repressor; AltName:
           Full=PhoPQ-activated pathogenicity-related protein;
           Flags: Precursor;  &AY750687_1(AY750687|pid:none)
          Length = 494

 Score =  100 bits (248), Expect = 2e-20
 Identities = 53/83 (63%), Positives = 54/83 (65%)
 Frame = +2

Query: 11  TTXKXFRIITXMXIXXXIQFIXWDPXXITPTSXGXXSIPLXKPXAGWXAXFXEAEXLXAK 190
           TT + FRIIT M I   IQFI WDP  ITPTS G  SI L KP AGW A F EAE L AK
Sbjct: 387 TTRRDFRIITCMDITKCIQFIIWDPSDITPTSTGVYSITLSKPDAGWRAFFLEAEYLYAK 446

Query: 191 XSXDDEXTLKFXSEXAXGPKTLP 259
            S DDE TLKF SE A  P TLP
Sbjct: 447 NSIDDEYTLKFTSEVAIVPNTLP 469

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: 135,275,182
Number of extensions: 6181124
Number of successful extensions: 170
Number of sequences better than 10.0: 1
Number of HSP's gapped: 170
Number of HSP's successfully gapped: 1
Length of query: 87
Length of database: 1,040,966,779
Length adjustment: 57
Effective length of query: 30
Effective length of database: 858,322,534
Effective search space: 25749676020
Effective search space used: 25749676020
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: 0.90  gvh: 0.45  alm: 0.43  top: 0.40  tms: 0.00  mit: 0.37  mip: 0.03
 nuc: 0.00  erl: 0.00  erm: 0.20  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 

	 32.0 %: cytoplasmic
	 28.0 %: mitochondrial
	 28.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: peroxisomal

>> prediction for Contig-U10615-1 is cyt
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 1
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) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0