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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
VSK160
Library VS
(Link to library)
Clone ID VSK160
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig -
Original site URL
Representative seq. ID VSK160P
(Link to Original site)
Representative DNA sequence 
>VSK160 (VSK160Q) /CSM/VS/VSK1-C/VSK160Q.Seq.d/
CTTAAAAAAAAAAACACAGAATGGGTAAAGTNCATGGTGGTTTGAATCGTGCTGGTAAAG
TCAGAAACGCTNCTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGNG
CTAAAAAGAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAA
AGAAGGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAATATACAATTT
ATAATTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTTAAAAATAAAATAAA
TATTTTCTCCTCCTTNTAAAAAAAAAAXXXXXXXXXXCTTAAAAAAAAAAACACAGAATG
GGTAAAGTACATGGTGGTTTGAATCGTGCTGGTAAAGTCAGAAACGCTACTCCAAAGAAA
GATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGTGCTAAAAANAGAATGATCTTCAAC
AGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAAAGAAGGGTTACAACACTCAAAAC
GTCCCAACCGTTGCTTAAATTTATTAATATACAATTTATAATTAAAATAATAAATTTTTG
AAGAAATATTTAACTTTTTTTTAAAAATAAAATAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
lkkkntewvkxmvv*ivlvksetllqrkirkkkenqrlvxlkre*sstdvtsppslvsvk
rrvttlktsqpllkfiniqfiikiinf*rni*lff*k*NKYFLLLXKKK---

---LKKKNTEWVKYMVV*ivlvksetllqrkirkkkenqrlvvlkxe*sstdvtsppslv
svkrrvttlktsqpllkfiniqfiikiinf*rni*lffknki
Translated Amino Acid sequence (All Frames) 
Frame A:
lkkkntewvkxmvv*ivlvksetllqrkirkkkenqrlvxlkre*sstdvtsppslvsvk
rrvttlktsqpllkfiniqfiikiinf*rni*lff*k*NKYFLLLXKKK---

---LKKKNTEWVKYMVV*ivlvksetllqrkirkkkenqrlvvlkxe*sstdvtsppslv
svkrrvttlktsqpllkfiniqfiikiinf*rni*lffknki

Frame B:
lkkktqng*sxwwfescw*sqkrxsker*grkkktkgwsx*kendlqqt*rrrrrwfr*k
eglqhskrpnrclnlliynl*lk**ifeeifnfffknkinifssx*kk---

---lkkktqng*stwwfescw*sqkrysker*grkkktkgwsc*kxndlqqt*rrrrrwf
r*keglqhskrpnrclnlliynl*lk**ifeeifnfflkik*

Frame C:
*kkkhrmgkvhgglnragkvrnaxpkkdkeekrkpkvgrakkrmifnrrnvaavagfgkk
kgyntqnvptva*iy*ytiyn*nnkflkkyltfflkik*ifsppxkkk---

---*kkkhrmgkvhgglnragkvrnatpkkdkeekrkpkvgrakxrmifnrrnvaavagf
gkkkgyntqnvptva*iy*ytiyn*nnkflkkyltff*k*nk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK394 (VSK394Q) /CSM/VS/VSK3-D/VSK394Q.Seq.d/                        525   e-148
VSK370 (VSK370Q) /CSM/VS/VSK3-C/VSK370Q.Seq.d/                        525   e-148
VSK160 (VSK160Q) /CSM/VS/VSK1-C/VSK160Q.Seq.d/                        525   e-148
VSJ657 (VSJ657Q) /CSM/VS/VSJ6-C/VSJ657Q.Seq.d/                        525   e-148
VSI737 (VSI737Q) /CSM/VS/VSI7-B/VSI737Q.Seq.d/                        525   e-148
VSI616 (VSI616Q) /CSM/VS/VSI6-A/VSI616Q.Seq.d/                        525   e-148
VSI318 (VSI318Q) /CSM/VS/VSI3-A/VSI318Q.Seq.d/                        525   e-148
VSI311 (VSI311Q) /CSM/VS/VSI3-A/VSI311Q.Seq.d/                        525   e-148
VSI129 (VSI129Q) /CSM/VS/VSI1-B/VSI129Q.Seq.d/                        525   e-148
VSH595 (VSH595Q) /CSM/VS/VSH5-D/VSH595Q.Seq.d/                        519   e-146
own update 2004.12.25
Homology vs DNA 

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

AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.   498  e-139  7
AC116919|AC116919.2 Dictyostelium discoideum chromosome 2 map complement(6245035-6206343) strain AX4, complete sequence.    38  2e-05  5
AE014017|AE014017.1 Buchnera aphidicola str. Bp (Baizongia pistaciae), section 2 of 2 of the complete genome.    42  2e-05  9
AL008970|AL008970.3 Plasmodium falciparum MAL3P4.                 36  4e-05  9
AY048187|AY048187.1 Bombyx mori strain Xiafang mitochondrion, complete genome.    34  8e-05  6
AB063521|AB063521.2 Wigglesworthia brevipalpis DNA, complete genome, section 1/2.    38  1e-04  12
BX234758|BX234758.1 Danio rerio genomic clone DKEY-245A13, genomic survey sequence.    30  1e-04  5
AC116957|AC116957.2 Dictyostelium discoideum chromosome 2 map 1685067-2090751 strain AX4, complete sequence.    34  2e-04  8
AL031745|AL031745.8 Plasmodium falciparum DNA from MAL1P2.        38  3e-04  7
AE001416|AE001416.2 Plasmodium falciparum 3D7 chromosome 2 section 53 of 73 of the complete sequence.    40  4e-04  6
dna update 2003. 7.28
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q556Y1) RecName: Full=40S ribosomal protein S30;  &AC116984_159...   104   2e-21
AC138087_6(AC138087|pid:none) Medicago truncatula clone mth2-22p...    59   8e-08
EU975114_1(EU975114|pid:none) Zea mays clone 469296 unknown mRNA.      59   8e-08
AP002854_6(AP002854|pid:none) Oryza sativa Japonica Group genomi...    59   8e-08
EU955358_1(EU955358|pid:none) Zea mays clone 1529338 40S ribosom...    59   1e-07
EU247175_1(EU247175|pid:none) Lycosa singoriensis clone LSsin967...    57   5e-07
AK026639_1(AK026639|pid:none) Homo sapiens cDNA: FLJ22986 fis, c...    56   7e-07
CR858470_1(CR858470|pid:none) Pongo abelii mRNA; cDNA DKFZp468H2...    56   7e-07
EU124952_1(EU124952|pid:none) Arenicola marina ribosomal protein...    56   7e-07
BC077676_1(BC077676|pid:none) Xenopus tropicalis Finkel-Biskis-R...    56   7e-07
protein update 2009. 3.26
PSORT 

 psg: 0.41  gvh: 0.10  alm: 0.70  top: 0.53  tms: 0.00  mit: 0.29  mip: 0.00
 nuc: 0.24  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 

	 72.0 %: nuclear
	 12.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VSK160 is nuc
5' end seq. ID VSK160F
5' end seq. 
>VSK160F.Seq
CTTAAAAAAAAAAACACAGAATGGGTAAAGTNCATGGTGGTTTGAATCGTGCTGGTAAAG
TCAGAAACGCTNCTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGNG
CTAAAAAGAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAA
AGAAGGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAATATACAATTT
ATAATTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTTAAAAATAAAATAAA
TATTTTCTCCTCCTTNTAAAAAAAAAA----------
Length of 5' end seq. 327
3' end seq. ID VSK160Z
3' end seq. 
>VSK160Z.Seq
----------CTTAAAAAAAAAAACACAGAATGGGTAAAGTACATGGTGGTTTGAATCGT
GCTGGTAAAGTCAGAAACGCTACTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAG
GTTGGTCGTGCTAAAAANAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGT
TTCGGTAAAAAGAAGGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAA
TATACAATTTATAATTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTAAAAA
TAAAATAAA
Length of 3' end seq. 299
Connected seq. ID VSK160P
Connected seq. 
>VSK160P.Seq
CTTAAAAAAAAAAACACAGAATGGGTAAAGTNCATGGTGGTTTGAATCGTGCTGGTAAAG
TCAGAAACGCTNCTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGNG
CTAAAAAGAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAA
AGAAGGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAATATACAATTT
ATAATTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTTAAAAATAAAATAAA
TATTTTCTCCTCCTTNTAAAAAAAAAA----------CTTAAAAAAAAAAACACAGAATG
GGTAAAGTACATGGTGGTTTGAATCGTGCTGGTAAAGTCAGAAACGCTACTCCAAAGAAA
GATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGTGCTAAAAANAGAATGATCTTCAAC
AGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAAAGAAGGGTTACAACACTCAAAAC
GTCCCAACCGTTGCTTAAATTTATTAATATACAATTTATAATTAAAATAATAAATTTTTG
AAGAAATATTTAACTTTTTTTTAAAAATAAAATAAA
Length of connected seq. 626
Full length Seq ID -
Full length Seq. -
Length of full length seq. -