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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
VSF280
Library VS
(Link to library)
Clone ID VSF280
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14733-1
Original site URL
Representative seq. ID VSF280P
(Link to Original site)
Representative DNA sequence 
>VSF280 (VSF280Q) /CSM/VS/VSF2-D/VSF280Q.Seq.d/
ATCAAATTTAAAAACATTGTATTAAATTAACTTTTATTAAAAAAAAAAXXXXXXXXXXTA
GCAATTCAAAGGTCGTGGTGATTTGGATCAATGGGTAACATCATTTAAAGTTCGTTATAC
TCTTGATGGTGTTAATTGGAAAGAGTATAGAAATGGTAGTTCTATTGCTGCTAATAGTGA
TCGTAATACAGTTACCACTCATTTCTTTGATACTCCAATTAGAGCTCGTTCAATTGCAAT
TTGTCCATTGACTTGGAATACTCATATTTCATTAAGATTTGAATTATATGCTGAAATTGA
ACAACACAGTTTCACTCAAGTTGGTAGAAATATTTCACCAGGTGCTGATACTGTTTTAAA
TAGTACTACAAATACTGGTGCCCGTGAAATTCTTGTTGATGTTTTATTCCCAGTCGAATT
TAAATCAATTCCATTGATTGCAATTACATTAGGTCATATCGATACAACATCTGCTGATGC
AACTGGTACAAATGTTTACCAACAAACTCGTGTCGATGTTCAAGCAATTAATGTAACAAN
TAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
qi*KHCIKLTFIKKK---

---SNSKVVVIWING*hhlkfvillmvligksiemvvlllliviviqlplislilqlelv
qlqfvh*lgilifh*dlnymlklnntvslklveifhqvlilf*ivlqilvpvkfllmfys
qsnlnqfh*lqlh*visiqhllmqlvqmftnklvsmfkqlm*qx
Translated Amino Acid sequence (All Frames) 
Frame A:
ikfknivln*lllkkk---

---*qfkgrgdldqwvtsfkvrytldgvnwkeyrngssiaansdrntvtthffdtpirar
siaicpltwnthislrfelyaeieqhsftqvgrnispgadtvlnsttntgareilvdvlf
pvefksipliaitlghidttsadatgtnvyqqtrvdvqainvtx

Frame B:
snlktly*infy*kk---

---SNSKVVVIWING*hhlkfvillmvligksiemvvlllliviviqlplislilqlelv
qlqfvh*lgilifh*dlnymlklnntvslklveifhqvlilf*ivlqilvpvkfllmfys
qsnlnqfh*lqlh*visiqhllmqlvqmftnklvsmfkqlm*qx

Frame C:
qi*KHCIKLTFIKKK---

---aiqrsw*fgsmgnii*sslys*wc*lerv*kw*fycc***s*ysyhsfl*ysn*ssf
ncnlsidleysyfiki*iic*n*ttqfhssw*kyftrc*ycfk*yykywcp*nsc*cfip
sri*insidcnyirsyrynic*cnwykclptnscrcssn*cnx*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSF280 (VSF280Q) /CSM/VS/VSF2-D/VSF280Q.Seq.d/                        955   0.0
VSF817 (VSF817Q) /CSM/VS/VSF8-A/VSF817Q.Seq.d/                        940   0.0
SSL850 (SSL850Q) /CSM/SS/SSL8-C/SSL850Q.Seq.d/                        938   0.0
VFF232 (VFF232Q) /CSM/VF/VFF2-B/VFF232Q.Seq.d/                        926   0.0
VSE641 (VSE641Q) /CSM/VS/VSE6-B/VSE641Q.Seq.d/                        916   0.0
VSB180 (VSB180Q) /CSM/VS/VSB1-D/VSB180Q.Seq.d/                        886   0.0
VSC118 (VSC118Q) /CSM/VS/VSC1-A/VSC118Q.Seq.d/                        870   0.0
VSI848 (VSI848Q) /CSM/VS/VSI8-B/VSI848Q.Seq.d/                        868   0.0
VFD478 (VFD478Q) /CSM/VF/VFD4-D/VFD478Q.Seq.d/                        866   0.0
VSC281 (VSC281Q) /CSM/VS/VSC2-D/VSC281Q.Seq.d/                        864   0.0
own update 2001.11.13
Homology vs DNA 

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

J01284|J01284.1 Slime mold (D.discoideum) discoidin-Ic gene, complete cds.    78  3e-21  4
J01285|J01285.1 Slime mold (D.discoideum) discoidin-Id gene, 5' end.    78  1e-19  3
J01283|J01283.1 Slime mold (D.discoideum) discoidin-Ib gene, partial cds.    78  1e-19  3
J01282|J01282.1 Slime mold (D.discoideum) discoidin-ia gene.      70  8e-19  4
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.    78  6e-16  9
AC100517|AC100517.1 Mus musculus clone RP23-145I15, LOW-PASS SEQUENCE SAMPLING.    32  0.97  5
AC016616|AC016616.6 Homo sapiens chromosome 5 clone CTD-2230L22, WORKING DRAFT SEQUENCE, 26 ordered pieces.    38  1.2  3
AC108775|AC108775.4 Mus musculus clone RP23-331M15, WORKING DRAFT SEQUENCE, 3 ordered pieces.    44  1.8  1
AC114904|AC114904.3 Mus musculus clone RP24-121J22, WORKING DRAFT SEQUENCE, 5 ordered pieces.    44  1.8  1
AC113483|AC113483.4 Mus musculus clone RP23-343E12, WORKING DRAFT SEQUENCE, 2 ordered pieces.    38  2.4  4
dna update 2003. 8.23
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AB120175_1(AB120175|pid:none) Dictyostelium discoideum DD7-1 mRN...   317   2e-85
(P02887) RecName: Full=Discoidin-1 subunit B/C; AltName: Full=Di...   167   2e-40
J01282_1(J01282|pid:none) Slime mold (D.discoideum) discoidin-ia...   161   9e-39
(P42530) RecName: Full=Discoidin-2; AltName: Full=Discoidin II; ...   131   1e-29
DLDOID(A03383) discoidin I chain D - slime mold (Dictyostelium d...   117   1e-25
FN357340_20(FN357340|pid:none) Schistosoma mansoni genome sequen...    71   2e-11
AJ578435_1(AJ578435|pid:none) Paracentrotus lividus mRNA for nec...    69   8e-11
EU304328_129(EU304328|pid:none) Ostreococcus virus OsV5, complet...    67   3e-10
AF070482_1(AF070482|pid:none) Lytechinus variegatus echinonectin...    67   4e-10
CQ860004_1(CQ860004|pid:none) Sequence 39 from Patent WO20040733...    62   7e-09
protein update 2009. 3.22
PSORT 

 psg: 0.62  gvh: 0.26  alm: 0.51  top: 0.53  tms: 0.00  mit: 0.43  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 

	 48.0 %: nuclear
	 40.0 %: mitochondrial
	  8.0 %: cytoplasmic
	  4.0 %: cytoskeletal

>> prediction for VSF280 is nuc
5' end seq. ID VSF280F
5' end seq. 
>VSF280F.Seq
ATCAAATTTAAAAACATTGTATTAAATTAACTTTTATTAAAAAAAAAA----------
Length of 5' end seq. 48
3' end seq. ID VSF280Z
3' end seq. 
>VSF280Z.Seq
----------TAGCAATTCAAAGGTCGTGGTGATTTGGATCAATGGGTAACATCATTTAA
AGTTCGTTATACTCTTGATGGTGTTAATTGGAAAGAGTATAGAAATGGTAGTTCTATTGC
TGCTAATAGTGATCGTAATACAGTTACCACTCATTTCTTTGATACTCCAATTAGAGCTCG
TTCAATTGCAATTTGTCCATTGACTTGGAATACTCATATTTCATTAAGATTTGAATTATA
TGCTGAAATTGAACAACACAGTTTCACTCAAGTTGGTAGAAATATTTCACCAGGTGCTGA
TACTGTTTTAAATAGTACTACAAATACTGGTGCCCGTGAAATTCTTGTTGATGTTTTATT
CCCAGTCGAATTTAAATCAATTCCATTGATTGCAATTACATTAGGTCATATCGATACAAC
ATCTGCTGATGCAACTGGTACAAATGTTTACCAACAAACTCGTGTCGATGTTCAAGCAAT
TAATGTAACAANTAA
Length of 3' end seq. 485
Connected seq. ID VSF280P
Connected seq. 
>VSF280P.Seq
ATCAAATTTAAAAACATTGTATTAAATTAACTTTTATTAAAAAAAAAA----------TA
GCAATTCAAAGGTCGTGGTGATTTGGATCAATGGGTAACATCATTTAAAGTTCGTTATAC
TCTTGATGGTGTTAATTGGAAAGAGTATAGAAATGGTAGTTCTATTGCTGCTAATAGTGA
TCGTAATACAGTTACCACTCATTTCTTTGATACTCCAATTAGAGCTCGTTCAATTGCAAT
TTGTCCATTGACTTGGAATACTCATATTTCATTAAGATTTGAATTATATGCTGAAATTGA
ACAACACAGTTTCACTCAAGTTGGTAGAAATATTTCACCAGGTGCTGATACTGTTTTAAA
TAGTACTACAAATACTGGTGCCCGTGAAATTCTTGTTGATGTTTTATTCCCAGTCGAATT
TAAATCAATTCCATTGATTGCAATTACATTAGGTCATATCGATACAACATCTGCTGATGC
AACTGGTACAAATGTTTACCAACAAACTCGTGTCGATGTTCAAGCAATTAATGTAACAAN
TAA
Length of connected seq. 533
Full length Seq ID -
Full length Seq. -
Length of full length seq. -