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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
VFM237
Library VF
(Link to library)
Clone ID VFM237
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14957-1
Original site URL
Representative seq. ID VFM237P
(Link to Original site)
Representative DNA sequence 
>VFM237 (VFM237Q) /CSM/VF/VFM2-B/VFM237Q.Seq.d/
ATAAAAAAAATATCAACATATTACTGCATCATCAACATCCACAACAACAACAACAAAAGA
AATAATTACTAAATAACAAACGGACGATAGTTTAGTAATTTTCGATATTTATAGAAAAAA
AAAAXXXXXXXXXXCCAATTAAACGNANTGTTNCAGGTTCATGTGATAATTTGATNAAGA
TTTTCAAGAATGTAGAAGATAAATGGATTCTTGATAAACAATTGGAAGATCATAAAGATT
GGGTTAGAGATGTTGCATGGGCACCAAATATTGGCTTACCATATTCTAAAATCGCATCTT
GNTCACAAGATCGTTCCGTCATTGTTTGGACTCAAGATGAAAATGGTGTTTGGTCTGGTA
AACCTTTACCAAAATTCGATGATATCGTTTGGAGAGTTAGTTGGTCTGTCATTGGTAATA
TTTTAGCTGTTTCATGTGGTGATAATCAAGTAACTCTTTGGAAAGAAGGTGTTGATTCTG
AATGGAAATTAATTTCTCATGTTGAAAATAATTAATTAATAT
sequence update 2001.11.22
Translated Amino Acid sequence 
*kkyqhitasststttttkeiitk*QTDDSLVIFDIYRKKK---

---PIKRXVXGSCDNLXKIFKNVEDKWILDKQLEDHKDWVRDVAWAPNIGLPYSKIASXS
QDRSVIVWTQDENGVWSGKPLPKFDDIVWRVSWSVIGNILAVSCGDNQVTLWKEGVDSEW
KLISHVENN*li
Translated Amino Acid sequence (All Frames) 
Frame A:
ikkistyyciinihnnnnkrnny*itngr*fsnfryl*kkk---

---PIKRXVXGSCDNLXKIFKNVEDKWILDKQLEDHKDWVRDVAWAPNIGLPYSKIASXS
QDRSVIVWTQDENGVWSGKPLPKFDDIVWRVSWSVIGNILAVSCGDNQVTLWKEGVDSEW
KLISHVENN*li

Frame B:
*kkyqhitasststttttkeiitk*QTDDSLVIFDIYRKKK---

---qlnxxxqvhvii*xrfsrm*kingflinnwkiikiglemlhghqilayhilkshlxh
kivpslfglkmkmvfglvnlyqnsmisfgelvglslvif*lfhvviik*lfgkkvlilng
n*flmlkiin*y

Frame C:
kkninillhhqhpqqqqqkk*llnnkrtiv**fsifiekk---

---n*txcxrfm**fdxdfqecrr*mds**tigrs*rlg*rccmgtkywltif*nrilxt
rsfrhcldsr*kwclvw*tftkir*yrles*lvchw*yfscfmw**ssnslerrc*f*me
infsc*k*lin
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSA414 (VSA414Q) /CSM/VS/VSA4-A/VSA414Q.Seq.d/                        739   0.0
VFM237 (VFM237Q) /CSM/VF/VFM2-B/VFM237Q.Seq.d/                        739   0.0
VFK608 (VFK608Q) /CSM/VF/VFK6-A/VFK608Q.Seq.d/                        739   0.0
SLI176 (SLI176Q) /CSM/SL/SLI1-D/SLI176Q.Seq.d/                        739   0.0
FC-AY24 (FC-AY24Q) /CSM/FC/FC-AY/FC-AY24Q.Seq.d/                      739   0.0
VFC184 (VFC184Q) /CSM/VF/VFC1-D/VFC184Q.Seq.d/                        726   0.0
AFC744 (AFC744Q) /CSM/AF/AFC7-B/AFC744Q.Seq.d/                        708   0.0
SSF692 (SSF692Q) /CSM/SS/SSF6-D/SSF692Q.Seq.d/                        690   0.0
VFN144 (VFN144Q) /CSM/VF/VFN1-B/VFN144Q.Seq.d/                        686   0.0
SFF614 (SFF614Q) /CSM/SF/SFF6-A/SFF614Q.Seq.d/                        654   0.0
own update 2003. 6.21
Homology vs DNA 

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

AC120738|AC120738.4 Rattus norvegicus clone CH230-511J18, WORKING DRAFT SEQUENCE, 13 unordered pieces.    48   1e-08  4
AC115606|AC115606.2 Dictyostelium discoideum chromosome 2 map 159760-209066 strain AX4, complete sequence.    44   2e-07  4
AC146620|AC146620.1 Otolemur garnettii clone CH256-183L8, WORKING DRAFT SEQUENCE.    50   3e-07  6
AC023754|AC023754.3 Arabidopsis thaliana chromosome I BAC F1B16 genomic sequence, complete sequence.    46   1e-05  5
AC115598|AC115598.2 Dictyostelium discoideum chromosome 2 map 581427-735498 strain AX4, complete sequence.    44   1e-05  3
AC117176|AC117176.2 Dictyostelium discoideum chromosome 2 map 5018074-5200947 strain AX4, complete sequence.    50   1e-05  9
AC116977|AC116977.2 Dictyostelium discoideum chromosome 2 map 5515173-5817331 strain AX4, complete sequence.    40   3e-05  9
AC116957|AC116957.2 Dictyostelium discoideum chromosome 2 map 1685067-2090751 strain AX4, complete sequence.    40   8e-05  7
AC109096|AC109096.4 Rattus norvegicus clone CH230-222O6, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    50   8e-05  5
AC101225|AC101225.1 Mus musculus clone RP23-96J19, LOW-PASS SEQUENCE SAMPLING.    48   8e-05  2
dna update 2003.11. 2
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BC054585_1(BC054585|pid:none) Danio rerio SEC13 homolog (S. cere...   157   1e-37
BC073381_1(BC073381|pid:none) Xenopus laevis cDNA clone MGC:8081...   155   4e-37
BC061419_1(BC061419|pid:none) Xenopus tropicalis hypothetical pr...   155   4e-37
BC043755_1(BC043755|pid:none) Xenopus laevis SEC13-like 1 (S. ce...   155   4e-37
BC006167_1(BC006167|pid:none) Homo sapiens SEC13 homolog (S. cer...   153   3e-36
AK301999_1(AK301999|pid:none) Homo sapiens cDNA FLJ56334 complet...   153   3e-36
(P55735) RecName: Full=Protein SEC13 homolog; AltName: Full=SEC1...   153   3e-36
AK223019_1(AK223019|pid:none) Homo sapiens mRNA for SEC13-like 1...   151   8e-36
BC002128_1(BC002128|pid:none) Mus musculus SEC13 homolog (S. cer...   150   1e-35
AK009755_1(AK009755|pid:none) Mus musculus adult male tongue cDN...   150   1e-35
protein update 2009. 6.24
PSORT 

 psg: 0.75  gvh: 0.14  alm: 0.39  top: 0.53  tms: 0.00  mit: 0.20  mip: 0.00
 nuc: 0.07  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 

	 56.0 %: nuclear
	 32.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: Golgi

>> prediction for VFM237 is nuc
5' end seq. ID VFM237F
5' end seq. 
>VFM237F.Seq
ATAAAAAAAATATCAACATATTACTGCATCATCAACATCCACAACAACAACAACAAAAGA
AATAATTACTAAATAACAAACGGACGATAGTTTAGTAATTTTCGATATTTATAGAAAAAA
AAAANNNNNNNNNN
Length of 5' end seq. 134
3' end seq. ID VFM237Z
3' end seq. 
>VFM237Z.Seq
NNNNNNNNNNCCAATTAAACGNANTGTTNCAGGTTCATGTGATAATTTGATNAAGATTTT
CAAGAATGTAGAAGATAAATGGATTCTTGATAAACAATTGGAAGATCATAAAGATTGGGT
TAGAGATGTTGCATGGGCACCAAATATTGGCTTACCATATTCTAAAATCGCATCTTGNTC
ACAAGATCGTTCCGTCATTGTTTGGACTCAAGATGAAAATGGTGTTTGGTCTGGTAAACC
TTTACCAAAATTCGATGATATCGTTTGGAGAGTTAGTTGGTCTGTCATTGGTAATATTTT
AGCTGTTTCATGTGGTGATAATCAAGTAACTCTTTGGAAAGAAGGTGTTGATTCTGAATG
GAAATTAATTTCTCATGTTGAAAATAATTAATTAATAT
Length of 3' end seq. 398
Connected seq. ID VFM237P
Connected seq. 
>VFM237P.Seq
ATAAAAAAAATATCAACATATTACTGCATCATCAACATCCACAACAACAACAACAAAAGA
AATAATTACTAAATAACAAACGGACGATAGTTTAGTAATTTTCGATATTTATAGAAAAAA
AAAA----------CCAATTAAACGNANTGTTNCAGGTTCATGTGATAATTTGATNAAGA
TTTTCAAGAATGTAGAAGATAAATGGATTCTTGATAAACAATTGGAAGATCATAAAGATT
GGGTTAGAGATGTTGCATGGGCACCAAATATTGGCTTACCATATTCTAAAATCGCATCTT
GNTCACAAGATCGTTCCGTCATTGTTTGGACTCAAGATGAAAATGGTGTTTGGTCTGGTA
AACCTTTACCAAAATTCGATGATATCGTTTGGAGAGTTAGTTGGTCTGTCATTGGTAATA
TTTTAGCTGTTTCATGTGGTGATAATCAAGTAACTCTTTGGAAAGAAGGTGTTGATTCTG
AATGGAAATTAATTTCTCATGTTGAAAATAATTAATTAATAT
Length of connected seq. 512
Full length Seq ID -
Full length Seq. -
Length of full length seq. -