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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
VSJ233
Library VS
(Link to library)
Clone ID VSJ233
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15086-1
Original site URL
Representative seq. ID VSJ233P
(Link to Original site)
Representative DNA sequence 
>VSJ233 (VSJ233Q) /CSM/VS/VSJ2-B/VSJ233Q.Seq.d/
GGCAGGAAAAAAAGTCAAATCTAACACACCAAAACAAGACTTATCTGTCTCTAAATCAAA
GCTCACCAGCATTAAAGCCCCAGCTGCTGCCATCAAAGCTAAAGCTGCCGCTTCTGCTGT
CAAAAAGGGTGTCTCAAACAAATCTACCCGTAAGGTCAGAACCTCTGTCATCTTCAGACG
TCCAGTTACTTTAAACAACCCAAAGAAACCAGCTTACCCAAGAAGATCAGTCAACAAAAT
CACCAAAATGGATCAATTCAGAATCTTAAAAGCACCATTAACCACTGAATCTGCCACCCA
AAAAATCGAAGGTAGCAACACCATCACTTTTATGGTTGATATGTTTGCCAACAAATCACA
AGTTGCTGATGCCGTCGCTAAAATGTATGATGTCAAAGTCAAGAGAGTTAACACTTTAAT
TACCCCACGTGGTGAAAAGAAAGCTTTTGTCACTTTATCACCAGAATTCGAAGCTGCTGA
TGTTGCCAACAAAATCGGTTTAATCTAAACAATTCTCCCTTATATAATAAAAAAAAGCTT
TTCAAAAAAAAAAXXXXXXXXXXCACCATGGCAGGAAAAAAAGTCAAATCTAACACACCA
AAACAAGACTTATCTGTCTCTAAATCAAAGCTCACCAGCATTAAAGCCCCAGCTGCTGCC
ATCAAAGCTAAAGCTGCCGCTTCTGCTGTCAAAAAGGGTGTCTCAAACAAATCTACCCGT
AAGGTCAGAACCTCTGTCATCTTCAGACGTCCAGTTACTTTAAACAACCCAAAGAAACCA
GCTTACCCAAGAAGATCAGTCAACAAAATCACCAAAATGGATCAATTCAGAATCTTAAAA
GCACCATTAACCACTGAATCTGCCACCCAAAAAATCGAAGGTAGCAACACCATCACTTTT
ATGGTTGATATGTTTGCCAAAAAATCACAAGTTGCTGATGCCGTCGCTAAAATGTATGAT
GTCAAAGTCAAGAGAGTTAACACTTTAATTACCCCACGTGGTGAAAAGAAAGCTTTTGTC
ACTTTATCACCAGAATTCGAAGCTGCTGATGTTGCCAACAAAATCGGTTTAATCTAAACA
GATTCTCCCTTATATAATAAAAAAAAGC
sequence update 2001. 3.22
Translated Amino Acid sequence 
grkksqi*htktrlicl*ikahqh*spscchqs*scrfccqkgclkqiyp*gqnlchlqt
ssyfkqpketslpkkisqqnhqngsiqnlkstinh*ichpknrr*qhhhfyg*yvcqqit
sc*crr*nv*cqsqes*hfnyptw*kesfchfitrirsc*CCQQNRFNLNNSPLYNKKKL
FKKK---

---TMAGKKVKSNTPKQDLSVSKSKLTSIKAPAAAIKAKAAASAVKKGVSNKSTRKVRTS
VIFRRPVTLNNPKKPAYPRRSVNKITKMDQFRILKAPLTTESATQKIEGSNTITFMVDMF
AKKSQVADAVAKMYDVKVKRVNTLITPRGEKKAFVTLSPEFEAADVANKIGLI*tdsply
nkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
grkksqi*htktrlicl*ikahqh*spscchqs*scrfccqkgclkqiyp*gqnlchlqt
ssyfkqpketslpkkisqqnhqngsiqnlkstinh*ichpknrr*qhhhfyg*yvcqqit
sc*crr*nv*cqsqes*hfnyptw*kesfchfitrirsc*CCQQNRFNLNNSPLYNKKKL
FKKK---

---hhgrkksqi*htktrlicl*ikahqh*spscchqs*scrfccqkgclkqiyp*gqnl
chlqtssyfkqpketslpkkisqqnhqngsiqnlkstinh*ichpknrr*qhhhfyg*yv
cqkitsc*crr*nv*cqsqes*hfnyptw*kesfchfitrirsc*ccqqnrfnlnrfsli
**kk

Frame B:
agkkvksntpkqdlsvskskltsikapaaaikakaaasavkkgvsnkstrkvrtsvifrr
pvtlnnpkkpayprrsvnkitkmdqfrilkaplttesatqkiegsntitfmvdmfanksq
vadavakmydvkvkrvntlitprgekkafvtlspefeaadvankigli*tilpyiikksf
skkk---

---TMAGKKVKSNTPKQDLSVSKSKLTSIKAPAAAIKAKAAASAVKKGVSNKSTRKVRTS
VIFRRPVTLNNPKKPAYPRRSVNKITKMDQFRILKAPLTTESATQKIEGSNTITFMVDMF
AKKSQVADAVAKMYDVKVKRVNTLITPRGEKKAFVTLSPEFEAADVANKIGLI*tdsply
nkkk

Frame C:
qekksnlthqnktylslnqsspalkpqllpsklklplllskrvsqtnlpvrseplsssdv
qll*ttqrnqltqedqstkspkwinses*khh*plnlppkkskvatpsllwliclptnhk
llmpslkcmmsksreltl*lphvvkrkllslyhqnskllmlptksv*skqfsli**kkaf
qkk---

---pwqekksnlthqnktylslnqsspalkpqllpsklklplllskrvsqtnlpvrsepl
sssdvqll*ttqrnqltqedqstkspkwinses*khh*plnlppkkskvatpsllwlicl
pknhkllmpslkcmmsksreltl*lphvvkrkllslyhqnskllmlptksv*skqilpyi
ikks
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ233 (VSJ233Q) /CSM/VS/VSJ2-B/VSJ233Q.Seq.d/                       1023   0.0
VSK279 (VSK279Q) /CSM/VS/VSK2-D/VSK279Q.Seq.d/                       1021   0.0
VSK148 (VSK148Q) /CSM/VS/VSK1-B/VSK148Q.Seq.d/                       1021   0.0
VSG152 (VSG152Q) /CSM/VS/VSG1-C/VSG152Q.Seq.d/                       1021   0.0
VSF311 (VSF311Q) /CSM/VS/VSF3-A/VSF311Q.Seq.d/                       1021   0.0
VSD796 (VSD796Q) /CSM/VS/VSD7-D/VSD796Q.Seq.d/                       1021   0.0
VSA159 (VSA159Q) /CSM/VS/VSA1-C/VSA159Q.Seq.d/                       1021   0.0
VFO429 (VFO429Q) /CSM/VF/VFO4-B/VFO429Q.Seq.d/                       1021   0.0
SLH834 (SLH834Q) /CSM/SL/SLH8-B/SLH834Q.Seq.d/                       1021   0.0
SLC129 (SLC129Q) /CSM/SL/SLC1-B/SLC129Q.Seq.d/                       1021   0.0
own update 2001.11.29
Homology vs DNA 

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

BP190759|BP190759.1 Dugesia japonica cDNA, clone: 05686_HH, expressed in the head.    40  0.27  2
AC108200|AC108200.1 Homo sapiens chromosome UNK clone RP11-7O7, WORKING DRAFT SEQUENCE, 7 unordered pieces.    38  0.57  2
BQ019030|BQ019030.1 UI-H-DH1-awv-g-12-0-UI.s1 NCI_CGAP_DH1 Homo sapiens cDNA clone IMAGE:5824163 3', mRNA sequence.    34  1.3  2
BZ028442|BZ028442.1 oed90g08.g1 B.oleracea002 Brassica oleracea genomic, DNA sequence.    34  1.4  2
BH878677|BH878677.1 hs83e12.b1 WGS-ZmaysF (JM107 adapted methyl filtered) Zea mays genomic clone hs83e12 5', DNA sequence.    34  1.5  2
AC142107|AC142107.1 Mus musculus chromosome UNK clone RP24-192I1, WORKING DRAFT SEQUENCE, 8 unordered pieces.    34  1.5  6
AC127584|AC127584.1 Mus musculus chromosome UNK clone RP24-126H1, WORKING DRAFT SEQUENCE, 17 unordered pieces.    34  2.1  5
AC105184|AC105184.3 Homo sapiens chromosome 18 clone RP11-1022O7 map 18, WORKING DRAFT SEQUENCE, 14 ordered pieces.    44  3.6  1
AP001403|AP001403.3 Homo sapiens genomic DNA, chromosome 18q23 clone:RP11-850O21, WORKING DRAFT SEQUENCE, 17 unordered pieces.    44  3.6  1
AF347021|AF347021.1 Homo sapiens C2H2 zinc finger protein (SALL3) gene, complete cds.    44  3.6  1
dna update 2003. 7.18
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54BQ3) RecName: Full=60S ribosomal protein L23a;                    282   2e-74
EU302546_1(EU302546|pid:none) Lineus viridis ribosomal protein r...   153   1e-35
EU976714_1(EU976714|pid:none) Zea mays clone 988301 60S ribosoma...   147   6e-34
AL442115_17(AL442115|pid:none) Oryza sativa genomic DNA, chromos...   146   1e-33
AL606594_21(AL606594|pid:none) Oryza sativa genomic DNA, chromos...   146   1e-33
EF677891_1(EF677891|pid:none) Picea sitchensis clone WS0277_J13 ...   145   2e-33
EF084630_1(EF084630|pid:none) Picea sitchensis clone WS02719_C08...   145   2e-33
EF084011_1(EF084011|pid:none) Picea sitchensis clone WS0272_A23 ...   145   2e-33
AE017343_34(AE017343|pid:none) Cryptococcus neoformans var. neof...   144   4e-33
EU953672_1(EU953672|pid:none) Zea mays clone 1443834 60S ribosom...   144   4e-33
protein update 2009. 3.25
PSORT 

 psg: 0.71  gvh: 0.34  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.31  mip: 0.17
 nuc: 0.22  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: 0.50  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 84.0 %: cytoplasmic
	 12.0 %: mitochondrial
	  4.0 %: nuclear

>> prediction for VSJ233 is cyt
5' end seq. ID VSJ233F
5' end seq. 
>VSJ233F.Seq
GGCAGGAAAAAAAGTCAAATCTAACACACCAAAACAAGACTTATCTGTCTCTAAATCAAA
GCTCACCAGCATTAAAGCCCCAGCTGCTGCCATCAAAGCTAAAGCTGCCGCTTCTGCTGT
CAAAAAGGGTGTCTCAAACAAATCTACCCGTAAGGTCAGAACCTCTGTCATCTTCAGACG
TCCAGTTACTTTAAACAACCCAAAGAAACCAGCTTACCCAAGAAGATCAGTCAACAAAAT
CACCAAAATGGATCAATTCAGAATCTTAAAAGCACCATTAACCACTGAATCTGCCACCCA
AAAAATCGAAGGTAGCAACACCATCACTTTTATGGTTGATATGTTTGCCAACAAATCACA
AGTTGCTGATGCCGTCGCTAAAATGTATGATGTCAAAGTCAAGAGAGTTAACACTTTAAT
TACCCCACGTGGTGAAAAGAAAGCTTTTGTCACTTTATCACCAGAATTCGAAGCTGCTGA
TGTTGCCAACAAAATCGGTTTAATCTAAACAATTCTCCCTTATATAATAAAAAAAAGCTT
TTCAAAAAAAAAA----------
Length of 5' end seq. 553
3' end seq. ID VSJ233Z
3' end seq. 
>VSJ233Z.Seq
----------CACCATGGCAGGAAAAAAAGTCAAATCTAACACACCAAAACAAGACTTAT
CTGTCTCTAAATCAAAGCTCACCAGCATTAAAGCCCCAGCTGCTGCCATCAAAGCTAAAG
CTGCCGCTTCTGCTGTCAAAAAGGGTGTCTCAAACAAATCTACCCGTAAGGTCAGAACCT
CTGTCATCTTCAGACGTCCAGTTACTTTAAACAACCCAAAGAAACCAGCTTACCCAAGAA
GATCAGTCAACAAAATCACCAAAATGGATCAATTCAGAATCTTAAAAGCACCATTAACCA
CTGAATCTGCCACCCAAAAAATCGAAGGTAGCAACACCATCACTTTTATGGTTGATATGT
TTGCCAAAAAATCACAAGTTGCTGATGCCGTCGCTAAAATGTATGATGTCAAAGTCAAGA
GAGTTAACACTTTAATTACCCCACGTGGTGAAAAGAAAGCTTTTGTCACTTTATCACCAG
AATTCGAAGCTGCTGATGTTGCCAACAAAATCGGTTTAATCTAAACAGATTCTCCCTTAT
ATAATAAAAAAAAGC
Length of 3' end seq. 545
Connected seq. ID VSJ233P
Connected seq. 
>VSJ233P.Seq
GGCAGGAAAAAAAGTCAAATCTAACACACCAAAACAAGACTTATCTGTCTCTAAATCAAA
GCTCACCAGCATTAAAGCCCCAGCTGCTGCCATCAAAGCTAAAGCTGCCGCTTCTGCTGT
CAAAAAGGGTGTCTCAAACAAATCTACCCGTAAGGTCAGAACCTCTGTCATCTTCAGACG
TCCAGTTACTTTAAACAACCCAAAGAAACCAGCTTACCCAAGAAGATCAGTCAACAAAAT
CACCAAAATGGATCAATTCAGAATCTTAAAAGCACCATTAACCACTGAATCTGCCACCCA
AAAAATCGAAGGTAGCAACACCATCACTTTTATGGTTGATATGTTTGCCAACAAATCACA
AGTTGCTGATGCCGTCGCTAAAATGTATGATGTCAAAGTCAAGAGAGTTAACACTTTAAT
TACCCCACGTGGTGAAAAGAAAGCTTTTGTCACTTTATCACCAGAATTCGAAGCTGCTGA
TGTTGCCAACAAAATCGGTTTAATCTAAACAATTCTCCCTTATATAATAAAAAAAAGCTT
TTCAAAAAAAAAA----------CACCATGGCAGGAAAAAAAGTCAAATCTAACACACCA
AAACAAGACTTATCTGTCTCTAAATCAAAGCTCACCAGCATTAAAGCCCCAGCTGCTGCC
ATCAAAGCTAAAGCTGCCGCTTCTGCTGTCAAAAAGGGTGTCTCAAACAAATCTACCCGT
AAGGTCAGAACCTCTGTCATCTTCAGACGTCCAGTTACTTTAAACAACCCAAAGAAACCA
GCTTACCCAAGAAGATCAGTCAACAAAATCACCAAAATGGATCAATTCAGAATCTTAAAA
GCACCATTAACCACTGAATCTGCCACCCAAAAAATCGAAGGTAGCAACACCATCACTTTT
ATGGTTGATATGTTTGCCAAAAAATCACAAGTTGCTGATGCCGTCGCTAAAATGTATGAT
GTCAAAGTCAAGAGAGTTAACACTTTAATTACCCCACGTGGTGAAAAGAAAGCTTTTGTC
ACTTTATCACCAGAATTCGAAGCTGCTGATGTTGCCAACAAAATCGGTTTAATCTAAACA
GATTCTCCCTTATATAATAAAAAAAAGC
Length of connected seq. 1098
Full length Seq ID -
Full length Seq. -
Length of full length seq. -