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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
CHR246
Library CH
(Link to library)
Clone ID CHR246
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16475-1
Original site URL
Representative seq. ID CHR246P
(Link to Original site)
Representative DNA sequence 
>CHR246 (CHR246Q) /CSM/CH/CHR2-B/CHR246Q.Seq.d/
CTGGTTTAAATGCCCCATTAACAATGAACAATTACCTTAAACTATGATTCTGACAGTGGT
AATTATANTTTTCACCAATCCAAATTTCTTTTTAATTGATACAGATGGATTCGATAAAAC
AGCATCAAATCGTATXXXXXXXXXXAGCTCAAGATTCTCATTGTGATGATGGTAATCCAT
GTACTGATAATGCTTGTGTCGCTTCAGCTAATAGTACCGCCAATAGCCAAGTTGGTCAAT
GCACTCAAACTCCAACTGCTAAATGTGATTTGGGTGATAAATGTATGGTTTACAGTTGTA
CCTTGGAAGGTGGTTGTAATGCAACTCAACGTGTTTGTCCAAACTCTGGTGCTTGTAAAA
TTGGTTATTGTGAACCTGGTTTCGGTTGTAAATTAAAGGATAGAGTTTGTTCTTCCGATT
GGTATTGTATTGAAGCTCAATGTGATGCAAAATATGGTTGCATTCAATTCGATAGAAGAT
GTGCTCCTGATAATAGTAAATGTCAAGAAGGTGTCTGTGTAAACAATACTGCTATCGGTA
AAAATGATGGAAAATGTATTTCTGAAGATTATGATCCAAAACCATTTGTTTGTCAAAAAG
CTGCTTTAGTTTCAACTGCTGTTATTGCAAGTGTTGTTGTAGTTGGTGCTGTTGTTTTA
sequence update 2002.10.25
Translated Amino Acid sequence 
wfkcpinneqlp*TMILTVVIIXFTNPNFFLIDTDGFDKTASNR---

---AQDSHCDDGNPCTDNACVASANSTANSQVGQCTQTPTAKCDLGDKCMVYSCTLEGGC
NATQRVCPNSGACKIGYCEPGFGCKLKDRVCSSDWYCIEAQCDAKYGCIQFDRRCAPDNS
KCQEGVCVNNTAIGKNDGKCISEDYDPKPFVCQKAALVSTAVIASVVVVGAVVL
Translated Amino Acid sequence (All Frames) 
Frame A:
lv*mph*q*titlnydsdsgnyxfhqskflfn*yrwir*nsiksy---

---ssrfsl**w*smy**clcrfs**yrq*pswsmhsnsnc*m*fg**myglqlylgrwl
*cnstclsklwcl*nwll*twfrl*ikg*slffrlvly*ssm*ckiwlhsir*kmcs***
*msrrclckqycyr*k*wkmyf*rl*skticlskscfsfnccyckcccswcccf

Frame B:
wfkcpinneqlp*TMILTVVIIXFTNPNFFLIDTDGFDKTASNR---

---AQDSHCDDGNPCTDNACVASANSTANSQVGQCTQTPTAKCDLGDKCMVYSCTLEGGC
NATQRVCPNSGACKIGYCEPGFGCKLKDRVCSSDWYCIEAQCDAKYGCIQFDRRCAPDNS
KCQEGVCVNNTAIGKNDGKCISEDYDPKPFVCQKAALVSTAVIASVVVVGAVVL

Frame C:
glnapltmnnylkl*f*qw*lxfspiqisf*liqmdsikqhqiv---

---lkilivmmvihvlimlvslqlivppiaklvnalklqllnviwvinvwftvvpwkvvv
mqlnvfvqtlvlvklvivnlvsvvn*riefvlpigivlklnvmqnmvafnsiedvlliiv
nvkkvsv*tillsvkmmenvflkimiqnhlfvkkll*fqllllqvll*lvllf
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHQ874 (CHQ874Q) /CSM/CH/CHQ8-D/CHQ874Q.Seq.d/                       1019   0.0
SSD152 (SSD152Q) /CSM/SS/SSD1-C/SSD152Q.Seq.d/                       1019   0.0
SHL876 (SHL876Q) /CSM/SH/SHL8-D/SHL876Q.Seq.d/                       1019   0.0
SHL713 (SHL713Q) /CSM/SH/SHL7-A/SHL713Q.Seq.d/                       1019   0.0
SHL665 (SHL665Q) /CSM/SH/SHL6-C/SHL665Q.Seq.d/                       1019   0.0
SHL603 (SHL603Q) /CSM/SH/SHL6-A/SHL603Q.Seq.d/                       1019   0.0
SHL544 (SHL544Q) /CSM/SH/SHL5-B/SHL544Q.Seq.d/                       1019   0.0
SHL161 (SHL161Q) /CSM/SH/SHL1-C/SHL161Q.Seq.d/                       1019   0.0
SHK812 (SHK812Q) /CSM/SH/SHK8-A/SHK812Q.Seq.d/                       1019   0.0
SHK780 (SHK780Q) /CSM/SH/SHK7-D/SHK780Q.Seq.d/                       1019   0.0
own update 2009. 4. 4
Homology vs DNA 

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

AC116957|AC116957.2 Dictyostelium discoideum chromosome 2 map 1685067-2090751 strain AX4, complete sequence.    66   1e-06  1
AC115684|AC115684.2 Dictyostelium discoideum chromosome 2 map 3108975-3191114 strain AX4, complete sequence.    42   0.002  4
CC946427|CC946427.1 BOIFV20TF BO_1.4_1.6_KB_nuc Brassica oleracea genomic clone BOIFV20, genomic survey sequence.    50   0.059  1
CC075688|CC075688.1 CSU-K33r.25G4.SP6 CSU-K33r Aedes aegypti genomic clone CSU-K33r.25G4, DNA sequence.    50   0.059  1
BH960705|BH960705.1 odd88f07.b1 B.oleracea002 Brassica oleracea genomic, DNA sequence.    50   0.059  1
AR549621|AR549621.1 Sequence 4752 from patent US 6747137.          46   0.23   2
AL287678|AL287678.1 Tetraodon nigroviridis genome survey sequence T7 end of clone 105D19 of library G from Tetraodon nigroviridis.    38   0.70   2
CX118034|CX118034.1 EI112L19 A normalized whole-life-cycle cDNA library of rice Oryza sativa (indica cultivar-group) cDNA clone EI112L19 5', mRNA sequence.    46   0.92   1
CB652801|CB652801.1 OSJNEc03D04.f OSJNEc Oryza sativa (japonica cultivar-group) cDNA clone OSJNEc03D04 5', mRNA sequence.    46   0.92   1
CB648789|CB648789.1 ---.    46   0.92   1
dna update 2005.11.14
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54P69) RecName: Full=Protein psiM; Flags: Precursor;                341   1e-92
(Q86HT1) RecName: Full=Protein psiL; Flags: Precursor;  &AC11695...   150   2e-35
(Q557E9) RecName: Full=Protein psiG; Flags: Precursor;  &AC11568...   145   1e-33
(Q94494) RecName: Full=Protein psiH; Flags: Precursor;  &U67940_...   138   2e-31
(Q54VS2) RecName: Full=Protein psiP; Flags: Precursor;                125   8e-28
(Q54G85) RecName: Full=Protein psiJ; Flags: Precursor;                107   4e-22
(Q54CH8) RecName: Full=Protein psiN; Flags: Precursor;                 97   3e-19
S44208(S44208) extracellular matrix protein B - Dictyostelium mi...    72   1e-11
AC117072_61(AC117072|pid:none) Dictyostelium discoideum chromoso...    68   2e-10
(P11976) RecName: Full=Prestalk protein; AltName: Full=Extracell...    66   1e-09
protein update 2009. 4.12
PSORT 

 psg: 0.98  gvh: 0.50  alm: 0.19  top: 0.33  tms: 0.13  mit: 0.28  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: 1.00  m3b: 0.00  m_ : 0.00 

	 28.0 %: mitochondrial
	 28.0 %: endoplasmic reticulum
	 16.0 %: plasma membrane
	  8.0 %: extracellular, including cell wall
	  4.0 %: Golgi
	  4.0 %: vacuolar
	  4.0 %: cytoplasmic
	  4.0 %: nuclear
	  4.0 %: vesicles of secretory system

>> prediction for CHR246 is mit
5' end seq. ID CHR246F
5' end seq. 
>CHR246F.Seq
CTGGTTTAAATGCCCCATTAACAATGAACAATTACCTTAAACTATGATTCTGACAGTGGT
AATTATANTTTTCACCAATCCAAATTTCTTTTTAATTGATACAGATGGATTCGATAAAAC
AGCATCAAATCGTATNNNNNNNNNN
Length of 5' end seq. 145
3' end seq. ID CHR246Z
3' end seq. 
>CHR246Z.Seq
NNNNNNNNNNAGCTCAAGATTCTCATTGTGATGATGGTAATCCATGTACTGATAATGCTT
GTGTCGCTTCAGCTAATAGTACCGCCAATAGCCAAGTTGGTCAATGCACTCAAACTCCAA
CTGCTAAATGTGATTTGGGTGATAAATGTATGGTTTACAGTTGTACCTTGGAAGGTGGTT
GTAATGCAACTCAACGTGTTTGTCCAAACTCTGGTGCTTGTAAAATTGGTTATTGTGAAC
CTGGTTTCGGTTGTAAATTAAAGGATAGAGTTTGTTCTTCCGATTGGTATTGTATTGAAG
CTCAATGTGATGCAAAATATGGTTGCATTCAATTCGATAGAAGATGTGCTCCTGATAATA
GTAAATGTCAAGAAGGTGTCTGTGTAAACAATACTGCTATCGGTAAAAATGATGGAAAAT
GTATTTCTGAAGATTATGATCCAAAACCATTTGTTTGTCAAAAAGCTGCTTTAGTTTCAA
CTGCTGTTATTGCAAGTGTTGTTGTAGTTGGTGCTGTTGTTTTA
Length of 3' end seq. 524
Connected seq. ID CHR246P
Connected seq. 
>CHR246P.Seq
CTGGTTTAAATGCCCCATTAACAATGAACAATTACCTTAAACTATGATTCTGACAGTGGT
AATTATANTTTTCACCAATCCAAATTTCTTTTTAATTGATACAGATGGATTCGATAAAAC
AGCATCAAATCGTAT----------AGCTCAAGATTCTCATTGTGATGATGGTAATCCAT
GTACTGATAATGCTTGTGTCGCTTCAGCTAATAGTACCGCCAATAGCCAAGTTGGTCAAT
GCACTCAAACTCCAACTGCTAAATGTGATTTGGGTGATAAATGTATGGTTTACAGTTGTA
CCTTGGAAGGTGGTTGTAATGCAACTCAACGTGTTTGTCCAAACTCTGGTGCTTGTAAAA
TTGGTTATTGTGAACCTGGTTTCGGTTGTAAATTAAAGGATAGAGTTTGTTCTTCCGATT
GGTATTGTATTGAAGCTCAATGTGATGCAAAATATGGTTGCATTCAATTCGATAGAAGAT
GTGCTCCTGATAATAGTAAATGTCAAGAAGGTGTCTGTGTAAACAATACTGCTATCGGTA
AAAATGATGGAAAATGTATTTCTGAAGATTATGATCCAAAACCATTTGTTTGTCAAAAAG
CTGCTTTAGTTTCAACTGCTGTTATTGCAAGTGTTGTTGTAGTTGGTGCTGTTGTTTTA
Length of connected seq. 649
Full length Seq ID -
Full length Seq. -
Length of full length seq. -