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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
VSC122
Library VS
(Link to library)
Clone ID VSC122
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06419-1
Original site URL
Representative seq. ID VSC122E
(Link to Original site)
Representative DNA sequence 
>VSC122 (VSC122Q) /CSM/VS/VSC1-A/VSC122Q.Seq.d/
AAACATATTAATATTTTTAATAACATTTAATAAAATAAAAAAGGGAAAATAAAAATTTTT
GATAAAATAAAAAAAATGGGTGCCAAGAGTTCAAAACCAAAATACATAGTTCAAGGAAGT
AACAGTAGTAGTGGCAGAGGAGGTTCACGTTNTACTTTCTATGCATAGTTGAAAAAAAAA
AAAAAAAAAAAAAAAAAAATGTTATTATATCCATCTATATGATCAATAAAATCAATCATT
TTAAAATGATTTTTT
sequence update 2000. 9.22
Translated Amino Acid sequence 
khinifnni**NKKGKIKIFDKIKKMGAKSSKPKYIVQGSNSSSGRGGSRXTFYA*lkkk
kkkkkkmllypsi*siksiilk*ff
Translated Amino Acid sequence (All Frames) 
Frame A:
khinifnni**NKKGKIKIFDKIKKMGAKSSKPKYIVQGSNSSSGRGGSRXTFYA*lkkk
kkkkkkmllypsi*siksiilk*ff


Frame B:
niliflitfnkikkgk*kflik*kkwvprvqnqnt*fkevtvvvaeevhvxlsmhs*kkk
kkkkkkcyyihlydq*nqsf*ndf


Frame C:
ty*yf**hlik*krenknf**nkkngcqefktkihssrk*q**wqrrftxyflcivekkk
kkkkknviisiyminkinhfkmif
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSC122 (VSC122Q) /CSM/VS/VSC1-A/VSC122Q.Seq.d/                        182   2e-45
VSC230 (VSC230Q) /CSM/VS/VSC2-B/VSC230Q.Seq.d/                        125   3e-28
VSD361 (VSD361Q) /CSM/VS/VSD3-C/VSD361Q.Seq.d/                         36   0.24
VHQ236 (VHQ236Q) /CSM/VH/VHQ2-B/VHQ236Q.Seq.d/                         36   0.24
VHP553 (VHP553Q) /CSM/VH/VHP5-C/VHP553Q.Seq.d/                         36   0.24
VHP336 (VHP336Q) /CSM/VH/VHP3-B/VHP336Q.Seq.d/                         36   0.24
VHN619 (VHN619Q) /CSM/VH/VHN6-A/VHN619Q.Seq.d/                         36   0.24
VHN242 (VHN242Q) /CSM/VH/VHN2-B/VHN242Q.Seq.d/                         36   0.24
VHM619 (VHM619Q) /CSM/VH/VHM6-A/VHM619Q.Seq.d/                         36   0.24
VHM515 (VHM515Q) /CSM/VH/VHM5-A/VHM515Q.Seq.d/                         36   0.24
own update 2003.10.31
Homology vs DNA 

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

BZ392161|BZ392161.1 EINDS50TF EI_10_12_KB Entamoeba invadens genomic clone EINDS50, DNA sequence.    38  0.001  2
AC128186|AC128186.3 Rattus norvegicus clone CH230-382E14, WORKING DRAFT SEQUENCE, 1 ordered piece.    44  0.078  3
AF100324|AF100324.1 Mycoplasma fermentans DNA polymerase III subunit (dnaH), YabC protein (yabC), orf550, lipoprotein MALP-404 precursor (malP), insertion sequence IS1630 transposase (tnpA) genes, complete cds; P78 ATP-binding cassette transport operon, complete sequence; thioredoxin (trxA), and SmpB protein (smpB) genes, complete cds.    32  0.17  3
BM160686|BM160686.1 EST563209 PyBS Plasmodium yoelii yoelii cDNA clone PYCJU46 5' end, mRNA sequence.    34  0.25  2
AX348410|AX348410.1 Sequence 105 from Patent WO0202806.           44  0.79  1
AC126779|AC126779.10 Medicago truncatula clone mth2-34m14, WORKING DRAFT SEQUENCE, 2 ordered pieces.    44  0.79  1
AL583844|AL583844.11 Human DNA sequence from clone RP11-365D9 on chromosome 1.    44  0.79  1
AC130080|AC130080.2 Rattus norvegicus clone CH230-146K12, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    44  0.79  1
BZ396500|BZ396500.1 EINAH53TF EI_10_12_KB Entamoeba invadens genomic clone EINAH53, DNA sequence.    44  0.79  1
AL590406|AL590406.6 Human DNA sequence from clone RP11-418P12 on chromosome 6.    36  0.80  3
dna update 2003. 8.16
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: 3268448
Number of Hits to DB: 226,977,786
protein update 2009. 7.28
PSORT 

 psg: 0.58  gvh: 0.30  alm: 0.69  top: 0.53  tms: 0.00  mit: 0.34  mip: 0.00
 nuc: 0.12  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: 0.00  m3b: 0.00  m_ : 1.00 

	 36.0 %: nuclear
	 24.0 %: mitochondrial
	 20.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for VSC122 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID VSC122E
Full length Seq. 
>VSC122E.Seq
AAACATATTAATATTTTTAATAACATTTAATAAAATAAAAAAGGGAAAATAAAAATTTTT
GATAAAATAAAAAAAATGGGTGCCAAGAGTTCAAAACCAAAATACATAGTTCAAGGAAGT
AACAGTAGTAGTGGCAGAGGAGGTTCACGTTNTACTTTCTATGCATAGTTGAAAAAAAAA
AAAAAAAAAAAAAAAAAAATGTTATTATATCCATCTATATGATCAATAAAATCAATCATT
TTAAAATGATTTTTT
Length of full length seq. 255