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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
VSF242
Library VS
(Link to library)
Clone ID VSF242
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16488-1
Original site URL
Representative seq. ID VSF242P
(Link to Original site)
Representative DNA sequence 
>VSF242 (VSF242Q) /CSM/VS/VSF2-B/VSF242Q.Seq.d/
AAAGNAACGTGGTGATTTATTATTCCCAAGCATCGAATCCGAAAAACGTAAACATAAATT
AAAGAGATTGGTCCAAGCACCAAACTCCTTCTTTATGGATATCAACTGTCACGGTTGTAG
AACCATCACTACCGTTTTCTCACACGCCCAAAACGTTGTCATTTGCAGTTCATGTTCAAC
TGTTATTGCTCAACCAACTGGTGGTCGTGCTAGAATCACTGCCGGTTGTCGTTTAAGACA
AAAATCCGACTAAGGTTACCGTCCAATCGCACCAACGCTTTCAATTTTTTTTTTAATAGA
AAATAAACAATAAAAAAAAATGCTATGTGCAGAGTAATAATATAATATGTATATAGAATT
TTATATATAAAAAAAAAAXXXXXXXXXXAAAGAACGTGGTGATTTATTATTCCCAAGCAT
CGAATCCGAAAAACGTAAACATAAATTAAAGAGATTGGTCCAAGCACCAAACTCCTTCTT
TATGGATATCAACTGTCACGGTTGTAGAACCATCACTACCGTTTTCTCACACGCCCAAAA
CGTTGTCATTTGCAGTTCATGTTCAACTGTTATTGCTCAACCAACTGGTGGTCGTGCTAG
AATCACTGCCGGTTGTCGTTTAAGACAAAAATCCGACTAAGGTTACCGGCCAATCGCACC
AACGCTTTNTTTTTTTTTTTTAATAGAAAATAAT
sequence update 2001. 3.22
Translated Amino Acid sequence 
kxtw*fiipkhrirkt*t*ikeigpstklllygyqlsrl*nhhyrfltrpkrchlqfmfn
cycstnwwsc*nhcrlsfktkirlrlpsnrtnafnfffnrk*tikknamcrvii*YVYRI
LYIKKK---

---KERGDLLFPSIESEKRKHKLKRLVQAPNSFFMDINCHGCRTITTVFSHAQNVVICSS
CSTVIAQPTGGRARITAGCRLRQKSD*gyrpiaptlxffflienn
Translated Amino Acid sequence (All Frames) 
Frame A:
kxtw*fiipkhrirkt*t*ikeigpstklllygyqlsrl*nhhyrfltrpkrchlqfmfn
cycstnwwsc*nhcrlsfktkirlrlpsnrtnafnfffnrk*tikknamcrvii*YVYRI
LYIKKK---

---KERGDLLFPSIESEKRKHKLKRLVQAPNSFFMDINCHGCRTITTVFSHAQNVVICSS
CSTVIAQPTGGRARITAGCRLRQKSD*gyrpiaptlxffflienn

Frame B:
kxrgdllfpsiesekrkhklkrlvqapnsffmdinchgcrtittvfshaqnvvicsscst
viaqptggraritagcrlrqksd*gyrpiaptlsifflienkq*kkmlcae**ynmyief
yi*kk---

---knvviyysqasnpknvnin*rdwskhqtpslwistvtvvepslpfshtpktlsfavh
vqllllnqlvvvleslpvvv*dknptkvtgqshqrfxfff**ki

Frame C:
xnvviyysqasnpknvnin*rdwskhqtpslwistvtvvepslpfshtpktlsfavhvql
lllnqlvvvleslpvvv*dknptkvtvqshqrfqfff**kinnkkkcyvqsnniici*nf
iykkk---

---rtw*fiipkhrirkt*t*ikeigpstklllygyqlsrl*nhhyrfltrpkrchlqfm
fncycstnwwsc*nhcrlsfktkirlrlpanrtnaxffffnrk*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSF242 (VSF242Q) /CSM/VS/VSF2-B/VSF242Q.Seq.d/                        611   e-174
VSJ164 (VSJ164Q) /CSM/VS/VSJ1-C/VSJ164Q.Seq.d/                        607   e-173
VSI793 (VSI793Q) /CSM/VS/VSI7-D/VSI793Q.Seq.d/                        607   e-173
VSI109 (VSI109Q) /CSM/VS/VSI1-A/VSI109Q.Seq.d/                        607   e-173
VSH184 (VSH184Q) /CSM/VS/VSH1-D/VSH184Q.Seq.d/                        607   e-173
VSG341 (VSG341Q) /CSM/VS/VSG3-B/VSG341Q.Seq.d/                        607   e-173
VSG840 (VSG840Q) /CSM/VS/VSG8-B/VSG840Q.Seq.d/                        601   e-171
VSF716 (VSF716Q) /CSM/VS/VSF7-A/VSF716Q.Seq.d/                        599   e-170
VSI480 (VSI480Q) /CSM/VS/VSI4-D/VSI480Q.Seq.d/                        597   e-170
VSG503 (VSG503Q) /CSM/VS/VSG5-A/VSG503Q.Seq.d/                        597   e-170
own update 2004.12.25
Homology vs DNA 

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

AC116100|AC116100.2 Dictyostelium discoideum chromosome 2 map 6163571-6199719 strain AX4, complete sequence.   287  e-166  4
Z26877|Z26877.1 S.cerevisiae (S288C) 36.2kb DNA fragment from chromosome 11.    50  0.037  1
Z28156|Z28156.1 S.cerevisiae chromosome XI reading frame ORF YKL156w.    50  0.037  1
AX536650|AX536650.1 Sequence 251 from Patent WO02064766.          50  0.037  1
Z28155|Z28155.1 S.cerevisiae chromosome XI reading frame ORF YKL155c.    50  0.037  1
BU641274|BU641274.2 mgmk005xK07f.b pmk1 in pBluescriptII sk(-) plasmid Magnaporthe grisea cDNA clone mgmk005xK07 5', mRNA sequence.    50  0.037  1
AZ923598|AZ923598.1 4908.gf21i19.s1 Saccharomyces cariocanus UFRJ 50791 Saccharomyces cariocanus genomic clone 4908.gf21i19.s1, DNA sequence.    48  0.15  1
BF824319|BF824319.1 NcEST3a21h12.y1 Nc 1314 Tachyzoite cDNA Neospora caninum cDNA 5' similar to TR:Q9ZNS3 Q9ZNS3 RIBOSOMAL PROTEIN S27. ;, mRNA sequence.    36  0.32  2
BG235080|BG235080.1 NcEST3a40b01.y1 Nc 1314 Tachyzoite cDNA Neospora caninum cDNA 5' similar to TR:Q9ZNS3 Q9ZNS3 RIBOSOMAL PROTEIN S27. ;, mRNA sequence.    36  0.34  2
BF249095|BF249095.1 NcEST3a07a05.y1 Nc 1314 Tachyzoite cDNA Neospora caninum cDNA 5' similar to TR:Q9ZNS3 Q9ZNS3 RIBOSOMAL PROTEIN S27. ;, mRNA sequence.    36  0.34  2
dna update 2003. 8.23
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

EF082617_1(EF082617|pid:none) Picea sitchensis clone WS0299_E22 ...   124   2e-27
AY857484_1(AY857484|pid:none) Suberites domuncula S27 mRNA, comp...   123   6e-27
BT051468_1(BT051468|pid:none) Medicago truncatula clone MTYF1_F2...   122   8e-27
DQ241850_1(DQ241850|pid:none) Solanum tuberosum clone 187G01 rib...   121   2e-26
BT053528_1(BT053528|pid:none) Medicago truncatula clone MTYFP_FQ...   121   2e-26
EF146224_1(EF146224|pid:none) Populus trichocarpa clone WS0116_F...   121   2e-26
DQ673404_1(DQ673404|pid:none) Diaphorina citri putative ribosoma...   120   3e-26
EF179453_1(EF179453|pid:none) Xenopsylla cheopis clone XC-86 rib...   120   3e-26
(Q9M2F1) RecName: Full=40S ribosomal protein S27-2;  &AF083336_1...   120   5e-26
AL137898_1(AL137898|pid:none) Arabidopsis thaliana DNA chromosom...   120   5e-26
protein update 2009. 7.31
PSORT 

 psg: 0.46  gvh: 0.47  alm: 0.43  top: 0.53  tms: 0.00  mit: 0.27  mip: 0.02
 nuc: 0.09  erl: 0.00  erm: 0.40  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 

	 52.0 %: cytoplasmic
	 44.0 %: nuclear
	  4.0 %: mitochondrial

>> prediction for VSF242 is cyt
5' end seq. ID VSF242F
5' end seq. 
>VSF242F.Seq
AAAGNAACGTGGTGATTTATTATTCCCAAGCATCGAATCCGAAAAACGTAAACATAAATT
AAAGAGATTGGTCCAAGCACCAAACTCCTTCTTTATGGATATCAACTGTCACGGTTGTAG
AACCATCACTACCGTTTTCTCACACGCCCAAAACGTTGTCATTTGCAGTTCATGTTCAAC
TGTTATTGCTCAACCAACTGGTGGTCGTGCTAGAATCACTGCCGGTTGTCGTTTAAGACA
AAAATCCGACTAAGGTTACCGTCCAATCGCACCAACGCTTTCAATTTTTTTTTTAATAGA
AAATAAACAATAAAAAAAAATGCTATGTGCAGAGTAATAATATAATATGTATATAGAATT
TTATATATAAAAAAAAAA----------
Length of 5' end seq. 378
3' end seq. ID VSF242Z
3' end seq. 
>VSF242Z.Seq
----------AAAGAACGTGGTGATTTATTATTCCCAAGCATCGAATCCGAAAAACGTAA
ACATAAATTAAAGAGATTGGTCCAAGCACCAAACTCCTTCTTTATGGATATCAACTGTCA
CGGTTGTAGAACCATCACTACCGTTTTCTCACACGCCCAAAACGTTGTCATTTGCAGTTC
ATGTTCAACTGTTATTGCTCAACCAACTGGTGGTCGTGCTAGAATCACTGCCGGTTGTCG
TTTAAGACAAAAATCCGACTAAGGTTACCGGCCAATCGCACCAACGCTTTNTTTTTTTTT
TTTAATAGAAAATAAT
Length of 3' end seq. 306
Connected seq. ID VSF242P
Connected seq. 
>VSF242P.Seq
AAAGNAACGTGGTGATTTATTATTCCCAAGCATCGAATCCGAAAAACGTAAACATAAATT
AAAGAGATTGGTCCAAGCACCAAACTCCTTCTTTATGGATATCAACTGTCACGGTTGTAG
AACCATCACTACCGTTTTCTCACACGCCCAAAACGTTGTCATTTGCAGTTCATGTTCAAC
TGTTATTGCTCAACCAACTGGTGGTCGTGCTAGAATCACTGCCGGTTGTCGTTTAAGACA
AAAATCCGACTAAGGTTACCGTCCAATCGCACCAACGCTTTCAATTTTTTTTTTAATAGA
AAATAAACAATAAAAAAAAATGCTATGTGCAGAGTAATAATATAATATGTATATAGAATT
TTATATATAAAAAAAAAA----------AAAGAACGTGGTGATTTATTATTCCCAAGCAT
CGAATCCGAAAAACGTAAACATAAATTAAAGAGATTGGTCCAAGCACCAAACTCCTTCTT
TATGGATATCAACTGTCACGGTTGTAGAACCATCACTACCGTTTTCTCACACGCCCAAAA
CGTTGTCATTTGCAGTTCATGTTCAACTGTTATTGCTCAACCAACTGGTGGTCGTGCTAG
AATCACTGCCGGTTGTCGTTTAAGACAAAAATCCGACTAAGGTTACCGGCCAATCGCACC
AACGCTTTNTTTTTTTTTTTTAATAGAAAATAAT
Length of connected seq. 684
Full length Seq ID -
Full length Seq. -
Length of full length seq. -