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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
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CHR359
Library CH
(Link to library)
Clone ID CHR359
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16371-1
Original site URL
Representative seq. ID CHR359P
(Link to Original site)
Representative DNA sequence 
>CHR359 (CHR359Q) /CSM/CH/CHR3-C/CHR359Q.Seq.d/
ATATAAATTATTTGTATATAATCAAACTATAGAGATCAATAGTAATTTAACATAAAAAAA
ATAAAAAAATAAAAAAATAAAAATAAAAAAGAAAAAATAAAAAAGAAAAAAGAAAAAAAA
AAXXXXXXXXXXGGTGGTGATGGTATAGACTNTCNATCAACCCCTCCTTCAATAACAACA
ACAAAAACCACTGAAATAATAGAAGAACAAGAAAAAAAAGATCAAGAAAATAAACAAGTT
GAAGNAGAACAANGTAAAANGANNAAAA
sequence update 2002.10.25
Translated Amino Acid sequence 
i*iici*snyrdq**fnikkikk*KNKNKKEKIKKKKEKK---

---GGDGIDXXSTPPSITTTKTTEIIEEQEKKDQENKQVEXEQXKXXK
Translated Amino Acid sequence (All Frames) 
Frame A:
i*iici*snyrdq**fnikkikk*KNKNKKEKIKKKKEKK---

---GGDGIDXXSTPPSITTTKTTEIIEEQEKKDQENKQVEXEQXKXXK

Frame B:
yklfvynqtieinsnlt*kk*knkkikikkkk*krkkkkk---

---vvmv*txxqpllq*qqqkplk**knkkkkikkinklkxnxvkxxk

Frame C:
inylyiikl*rsivi*hkknkkikk*k*krknkkekrkkk---

---w*wyrlsinpsfnnnnknh*nnrrtrkkrsrk*ts*xrtx*xxx
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHR359 (CHR359Q) /CSM/CH/CHR3-C/CHR359Q.Seq.d/                        180   7e-45
VSB386 (VSB386Q) /CSM/VS/VSB3-D/VSB386Q.Seq.d/                        127   9e-29
VHN140 (VHN140Q) /CSM/VH/VHN1-B/VHN140Q.Seq.d/                        127   9e-29
SFJ642 (SFJ642Q) /CSM/SF/SFJ6-B/SFJ642Q.Seq.d/                        127   9e-29
SFD776 (SFD776Q) /CSM/SF/SFD7-D/SFD776Q.Seq.d/                        127   9e-29
CHO783 (CHO783Q) /CSM/CH/CHO7-D/CHO783Q.Seq.d/                        127   9e-29
CHJ274 (CHJ274Q) /CSM/CH/CHJ2-D/CHJ274Q.Seq.d/                        127   9e-29
CHH326 (CHH326Q) /CSM/CH/CHH3-B/CHH326Q.Seq.d/                        127   9e-29
CFF244 (CFF244Q) /CSM/CF/CFF2-B/CFF244Q.Seq.d/                        127   9e-29
AHP513 (AHP513Q) /CSM/AH/AHP5-A/AHP513Q.Seq.d/                        127   9e-29
own update 2004.12.25
Homology vs DNA 

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

BM774815|BM774815.1 ra98a03.y1 Meloidogyne incognita egg pAMP1 Bird Meloidogyneincognita cDNA 5', mRNA sequence.    52   0.006  1
BZ955912|BZ955912.1 CH240_97M21.TV CHORI-240 Bos taurus genomic clone CH240_97M21, genomic survey sequence.    40   0.066  2
AC131014|AC131014.2 Rattus norvegicus clone CH230-237D20, *** SEQUENCING IN PROGRESS ***, 9 unordered pieces.    42   0.081  2
AC099232|AC099232.6 Rattus norvegicus clone CH230-200L13, *** SEQUENCING IN PROGRESS ***, 5 unordered pieces.    42   0.092  2
AC105552|AC105552.4 Rattus norvegicus clone CH230-335M5, *** SEQUENCING IN PROGRESS ***, 3 unordered pieces.    42   0.096  2
AC126639|AC126639.3 Rattus norvegicus clone CH230-225H20, WORKING DRAFT SEQUENCE, 6 unordered pieces.    34   0.20   2
AC107434|AC107434.5 Rattus norvegicus clone CH230-228C23, WORKING DRAFT SEQUENCE, 1 ordered piece.    34   0.20   2
AC113910|AC113910.5 Rattus norvegicus clone CH230-394F7, WORKING DRAFT SEQUENCE, 1 ordered piece.    34   0.20   2
AC124706|AC124706.4 Mus musculus BAC clone RP24-69G17 from chromosome 5, complete sequence.    42   0.33   3
AC164612|AC164612.3 Mus musculus chromosome 9 clone RP23-361B11, WORKING DRAFT SEQUENCE, 3 unordered pieces.    46   0.36   1
dna update 2005.11.15
Homology vs Protein 

 ***** 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: 3039690
Number of Hits to DB: 129,189,647
protein update 2009. 4.12
PSORT 

 psg: 0.23  gvh: 0.31  alm: 0.64  top: 0.53  tms: 0.00  mit: 0.17  mip: 0.00
 nuc: 0.16  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 

	 48.0 %: nuclear
	 36.0 %: cytoplasmic
	 12.0 %: mitochondrial
	  4.0 %: cytoskeletal

>> prediction for CHR359 is nuc
5' end seq. ID CHR359F
5' end seq. 
>CHR359F.Seq
ATATAAATTATTTGTATATAATCAAACTATAGAGATCAATAGTAATTTAACATAAAAAAA
ATAAAAAAATAAAAAAATAAAAATAAAAAAGAAAAAATAAAAAAGAAAAAAGAAAAAAAA
AANNNNNNNNNN
Length of 5' end seq. 132
3' end seq. ID CHR359Z
3' end seq. 
>CHR359Z.Seq
NNNNNNNNNNGGTGGTGATGGTATAGACTNTCNATCAACCCCTCCTTCAATAACAACAAC
AAAAACCACTGAAATAATAGAAGAACAAGAAAAAAAAGATCAAGAAAATAAACAAGTTGA
AGNAGAACAANGTAAAANGANNAAAA
Length of 3' end seq. 146
Connected seq. ID CHR359P
Connected seq. 
>CHR359P.Seq
ATATAAATTATTTGTATATAATCAAACTATAGAGATCAATAGTAATTTAACATAAAAAAA
ATAAAAAAATAAAAAAATAAAAATAAAAAAGAAAAAATAAAAAAGAAAAAAGAAAAAAAA
AA----------GGTGGTGATGGTATAGACTNTCNATCAACCCCTCCTTCAATAACAACA
ACAAAAACCACTGAAATAATAGAAGAACAAGAAAAAAAAGATCAAGAAAATAAACAAGTT
GAAGNAGAACAANGTAAAANGANNAAAA
Length of connected seq. 258
Full length Seq ID -
Full length Seq. -
Length of full length seq. -