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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
VSF240
Library VS
(Link to library)
Clone ID VSF240
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U16538-1
Original site URL
Representative seq. ID VSF240P
(Link to Original site)
Representative DNA sequence 
>VSF240 (VSF240Q) /CSM/VS/VSF2-B/VSF240Q.Seq.d/
ATGAGACTTTTAATNACATTATTTGCAATTTTCGCTTTATTCAACTGCTCATTAGCAAAC
ACTGCCACCAATGTTGGTGAATTTTTAATTGGTTTCGCCCAAGGTGTTGAAATCACACTC
AACAGTAACTCACAAGCATGTTTAAGTGGTGTCACCTCAACATTTGATGAATTCCAAACT
GCATTCCAATTAATTGACAGTGGTTTCAAATCAAAATCAATCAATCAAGTTAAAACTGGT
ATCACTGATCTCGGTTTAGCCATCCAACAAGTTCCAGTCGATTATGATGCTTGTGGTATC
ACTCAATTCGTTGAAGAAATCGAAGAAATCGCCTCAAAATTATCATCAGGTGTTGATGGT
ATCGTTGATGTTATCTTAAAGGAAGCCGTCGAAATCTGGGAACACAAAAACGATCTCTCT
GCTGACTTCAAAACTGCCATCGCTGATTGGAAATCATCAAACTACAATGGTTCAGGTGTT
GCCGTCGGTTCAATCATTGGTGATTTAATCCAAGGTGCTAAATAAATTTATTATTATTAT
AATAATATTATATCTAAAAAAAAAAXXXXXXXXXXATGAGACTTTTAATCACATTATTTG
CAATTTTCGCTTTATTCAACTGCTCATTAGCAAACACTGCCACCAATGTTGGTGAATTTT
TAATTGGTTTCGCCCAAGGTGTTGAAATCACACTCAACAGTAACTCACAAGCATGTTTAA
GTGGTGTCACCTCAACATTTGATGAATTCCAAACTGCATTCCAATTAATTGACAGTGGTT
TCAAATCAAAATCAATCAATCAAGTTAAAACTGGTATCACTGATCTCGGTTTAGCCATCC
AACAAGTTCCAGTCGATTATGATGCTTGTGGTATCACTCAATTCGTTGAAGAAATCGAAG
AAATCGCCTCAAAATTATCATCAGGTGTTGATGGTATCGTTGATGTTATCTTAAAGGAAG
CCGTCGAAATCTGGGAACACAAAAACGATCTCTCTGCTGACTTCAAAACTGCCATCGCTG
ATTGGAAATCATCAAACTACAATGGTTCAGGTGTTGCCGTCGGTTCAATCATTGGTGATT
TAANCCAAGGTGCTAAATAAATTTATTATTATTATAATA
sequence update 2001. 3.22
Translated Amino Acid sequence 
*df*xhylqfslystah*qtlppmlvnf*lvspkvlkshstvthkhv*vvspqhlmnskl
hsn*ltvvsnqnqsiklklvslisv*psnkfqsimmlvvslnslkkskkspqnyhqvlmv
slmls*rkpsksgntktislltsklpslignhqttmvqvlpsvqslvi*SKVLNKFIIII
IILYLKKK---

---MRLLITLFAIFALFNCSLANTATNVGEFLIGFAQGVEITLNSNSQACLSGVTSTFDE
FQTAFQLIDSGFKSKSINQVKTGITDLGLAIQQVPVDYDACGITQFVEEIEEIASKLSSG
VDGIVDVILKEAVEIWEHKNDLSADFKTAIADWKSSNYNGSGVAVGSIIGDLXQGAK*iy
yyyn
Translated Amino Acid sequence (All Frames) 
Frame A:
mrllxtlfaifalfncslantatnvgefligfaqgveitlnsnsqaclsgvtstfdefqt
afqlidsgfksksinqvktgitdlglaiqqvpvdydacgitqfveeieeiasklssgvdg
ivdvilkeaveiwehkndlsadfktaiadwkssnyngsgvavgsiigdliqgak*iyyyy
nniiskkk---

---MRLLITLFAIFALFNCSLANTATNVGEFLIGFAQGVEITLNSNSQACLSGVTSTFDE
FQTAFQLIDSGFKSKSINQVKTGITDLGLAIQQVPVDYDACGITQFVEEIEEIASKLSSG
VDGIVDVILKEAVEIWEHKNDLSADFKTAIADWKSSNYNGSGVAVGSIIGDLXQGAK*iy
yyyn

Frame B:
*df*xhylqfslystah*qtlppmlvnf*lvspkvlkshstvthkhv*vvspqhlmnskl
hsn*ltvvsnqnqsiklklvslisv*psnkfqsimmlvvslnslkkskkspqnyhqvlmv
slmls*rkpsksgntktislltsklpslignhqttmvqvlpsvqslvi*SKVLNKFIIII
IILYLKKK---

---*df*shylqfslystah*qtlppmlvnf*lvspkvlkshstvthkhv*vvspqhlmn
sklhsn*ltvvsnqnqsiklklvslisv*psnkfqsimmlvvslnslkkskkspqnyhqv
lmvslmls*rkpsksgntktislltsklpslignhqttmvqvlpsvqslvi*xkvlnkfi
iiii

Frame C:
etfnxiicnfrfiqlliskhchqcw*ifnwfrprc*nhtqq*ltsmfkwchlni**ipnc
ipin*qwfqikinqss*nwyh*srfshptsssrl*clwyhsir*rnrrnrlkiiirc*wy
r*cylkgsrrnlgtqkrslc*lqnchr*leiiklqwfrccrrfnhw*fnprc*inllll*
*yyi*kk---

---etfnhiicnfrfiqlliskhchqcw*ifnwfrprc*nhtqq*ltsmfkwchlni**i
pncipin*qwfqikinqss*nwyh*srfshptsssrl*clwyhsir*rnrrnrlkiiirc
*wyr*cylkgsrrnlgtqkrslc*lqnchr*leiiklqwfrccrrfnhw*fxprc*inll
ll*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSF240 (VSF240Q) /CSM/VS/VSF2-B/VSF240Q.Seq.d/                       1094   0.0
VSA374 (VSA374Q) /CSM/VS/VSA3-D/VSA374Q.Seq.d/                       1086   0.0
VSF357 (VSF357Q) /CSM/VS/VSF3-C/VSF357Q.Seq.d/                       1082   0.0
VSF413 (VSF413Q) /CSM/VS/VSF4-A/VSF413Q.Seq.d/                       1063   0.0
VSB377 (VSB377Q) /CSM/VS/VSB3-D/VSB377Q.Seq.d/                       1061   0.0
VSI560 (VSI560Q) /CSM/VS/VSI5-C/VSI560Q.Seq.d/                       1031   0.0
VSA191 (VSA191Q) /CSM/VS/VSA1-D/VSA191Q.Seq.d/                       1003   0.0
VSK112 (VSK112Q) /CSM/VS/VSK1-A/VSK112Q.Seq.d/                        989   0.0
VSH606 (VSH606Q) /CSM/VS/VSH6-A/VSH606Q.Seq.d/                        983   0.0
VSI883 (VSI883Q) /CSM/VS/VSI8-D/VSI883Q.Seq.d/                        981   0.0
own update 2004.12.25
Homology vs DNA 

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

Y17042|Y17042.1 Dictyostelium discoideum mRNA for P17 protein.  1092  0.0  1
AW441538|AW441538.1 EST310934 tomato fruit red ripe, TAMU Lycopersicon esculentum cDNA clone cLEN17F17 5', mRNA sequence.    42  3e-05  2
AC116982|AC116982.2 Dictyostelium discoideum chromosome 2 map 3622643-3879522 strain AX4, complete sequence.    34  3e-05  11
AJ011856|AJ011856.1 Saccharomyces cerevisiae complete mitochondrial genome.    46  8e-04  4
BX148119|BX148119.1 Danio rerio genomic clone DKEY-107O19, genomic survey sequence.    46  0.002  2
AL929352|AL929352.1 Plasmodium falciparum strain 3D7, chromosome 5, segment 2/4.    40  0.003  6
AC116986|AC116986.2 Dictyostelium discoideum chromosome 2 map 2234041-2567370 strain AX4, complete sequence.    38  0.004  6
B08580|B08580.1 F28K3-T7 IGF Arabidopsis thaliana genomic clone F28K3, genomic survey sequence.    38  0.010  2
AX510223|AX510223.1 Sequence 4918 from Patent WO0216655.          38  0.015  2
AC114263|AC114263.2 Dictyostelium discoideum chromosome 2 map 215673-367476 strain AX4, complete sequence.    44  0.017  7
dna update 2003. 8.23
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(O77257) RecName: Full=Protein gp17; Flags: Precursor;  &Y17042_...   313   9e-84
(Q54KD5) RecName: Full=P17/29C-like protein DDB_G0287399; Flags:...   128   4e-28
(Q23911) RecName: Full=Protein 29C; Flags: Precursor;                 123   1e-26
CP000975_2283(CP000975|pid:none) Methylacidiphilum infernorum V4...    35   3.7
AK090300_1(AK090300|pid:none) Mus musculus 16 days neonate male ...    35   4.8
AK144981_1(AK144981|pid:none) Mus musculus mammary gland RCB-052...    35   4.8
CP000312_556(CP000312|pid:none) Clostridium perfringens SM101, c...    34   8.3
CP001620_1697(CP001620|pid:none) Corynebacterium kroppenstedtii ...    34   8.3
protein update 2009. 7.31
PSORT 

 psg: 1.01  gvh: 0.69  alm: 0.41  top: 0.33  tms: 0.00  mit: 0.43  mip: 0.05
 nuc: 0.00  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 

	 64.0 %: extracellular, including cell wall
	 12.0 %: mitochondrial
	  8.0 %: endoplasmic reticulum
	  4.0 %: cytoplasmic
	  4.0 %: Golgi
	  4.0 %: vacuolar
	  4.0 %: nuclear

>> prediction for VSF240 is exc
5' end seq. ID VSF240F
5' end seq. 
>VSF240F.Seq
ATGAGACTTTTAATNACATTATTTGCAATTTTCGCTTTATTCAACTGCTCATTAGCAAAC
ACTGCCACCAATGTTGGTGAATTTTTAATTGGTTTCGCCCAAGGTGTTGAAATCACACTC
AACAGTAACTCACAAGCATGTTTAAGTGGTGTCACCTCAACATTTGATGAATTCCAAACT
GCATTCCAATTAATTGACAGTGGTTTCAAATCAAAATCAATCAATCAAGTTAAAACTGGT
ATCACTGATCTCGGTTTAGCCATCCAACAAGTTCCAGTCGATTATGATGCTTGTGGTATC
ACTCAATTCGTTGAAGAAATCGAAGAAATCGCCTCAAAATTATCATCAGGTGTTGATGGT
ATCGTTGATGTTATCTTAAAGGAAGCCGTCGAAATCTGGGAACACAAAAACGATCTCTCT
GCTGACTTCAAAACTGCCATCGCTGATTGGAAATCATCAAACTACAATGGTTCAGGTGTT
GCCGTCGGTTCAATCATTGGTGATTTAATCCAAGGTGCTAAATAAATTTATTATTATTAT
AATAATATTATATCTAAAAAAAAAA----------
Length of 5' end seq. 565
3' end seq. ID VSF240Z
3' end seq. 
>VSF240Z.Seq
----------ATGAGACTTTTAATCACATTATTTGCAATTTTCGCTTTATTCAACTGCTC
ATTAGCAAACACTGCCACCAATGTTGGTGAATTTTTAATTGGTTTCGCCCAAGGTGTTGA
AATCACACTCAACAGTAACTCACAAGCATGTTTAAGTGGTGTCACCTCAACATTTGATGA
ATTCCAAACTGCATTCCAATTAATTGACAGTGGTTTCAAATCAAAATCAATCAATCAAGT
TAAAACTGGTATCACTGATCTCGGTTTAGCCATCCAACAAGTTCCAGTCGATTATGATGC
TTGTGGTATCACTCAATTCGTTGAAGAAATCGAAGAAATCGCCTCAAAATTATCATCAGG
TGTTGATGGTATCGTTGATGTTATCTTAAAGGAAGCCGTCGAAATCTGGGAACACAAAAA
CGATCTCTCTGCTGACTTCAAAACTGCCATCGCTGATTGGAAATCATCAAACTACAATGG
TTCAGGTGTTGCCGTCGGTTCAATCATTGGTGATTTAANCCAAGGTGCTAAATAAATTTA
TTATTATTATAATA
Length of 3' end seq. 544
Connected seq. ID VSF240P
Connected seq. 
>VSF240P.Seq
ATGAGACTTTTAATNACATTATTTGCAATTTTCGCTTTATTCAACTGCTCATTAGCAAAC
ACTGCCACCAATGTTGGTGAATTTTTAATTGGTTTCGCCCAAGGTGTTGAAATCACACTC
AACAGTAACTCACAAGCATGTTTAAGTGGTGTCACCTCAACATTTGATGAATTCCAAACT
GCATTCCAATTAATTGACAGTGGTTTCAAATCAAAATCAATCAATCAAGTTAAAACTGGT
ATCACTGATCTCGGTTTAGCCATCCAACAAGTTCCAGTCGATTATGATGCTTGTGGTATC
ACTCAATTCGTTGAAGAAATCGAAGAAATCGCCTCAAAATTATCATCAGGTGTTGATGGT
ATCGTTGATGTTATCTTAAAGGAAGCCGTCGAAATCTGGGAACACAAAAACGATCTCTCT
GCTGACTTCAAAACTGCCATCGCTGATTGGAAATCATCAAACTACAATGGTTCAGGTGTT
GCCGTCGGTTCAATCATTGGTGATTTAATCCAAGGTGCTAAATAAATTTATTATTATTAT
AATAATATTATATCTAAAAAAAAAA----------ATGAGACTTTTAATCACATTATTTG
CAATTTTCGCTTTATTCAACTGCTCATTAGCAAACACTGCCACCAATGTTGGTGAATTTT
TAATTGGTTTCGCCCAAGGTGTTGAAATCACACTCAACAGTAACTCACAAGCATGTTTAA
GTGGTGTCACCTCAACATTTGATGAATTCCAAACTGCATTCCAATTAATTGACAGTGGTT
TCAAATCAAAATCAATCAATCAAGTTAAAACTGGTATCACTGATCTCGGTTTAGCCATCC
AACAAGTTCCAGTCGATTATGATGCTTGTGGTATCACTCAATTCGTTGAAGAAATCGAAG
AAATCGCCTCAAAATTATCATCAGGTGTTGATGGTATCGTTGATGTTATCTTAAAGGAAG
CCGTCGAAATCTGGGAACACAAAAACGATCTCTCTGCTGACTTCAAAACTGCCATCGCTG
ATTGGAAATCATCAAACTACAATGGTTCAGGTGTTGCCGTCGGTTCAATCATTGGTGATT
TAANCCAAGGTGCTAAATAAATTTATTATTATTATAATA
Length of connected seq. 1109
Full length Seq ID -
Full length Seq. -
Length of full length seq. -