NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VSJ550
Library VS
(Link to library)
Clone ID VSJ550
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14349-1
Original site URL
Representative seq. ID VSJ550P
(Link to Original site)
Representative DNA sequence 
>VSJ550 (VSJ550Q) /CSM/VS/VSJ5-C/VSJ550Q.Seq.d/
ACTAAATAAAAAACTATATATAAAAAATGTCTTCAGGTATTGCTTTAGCTCCAAACTGCG
TTTCAACCTTCAACGATTTAAAGTTAGGTCGTAAATATGGTGGTATCATCTACAGAATCT
CTGACGATTCAAAAGAAATCATTGTTGACTCCACCTTACCAGCTGGTTGTTCATTCGATG
AATTCACCAAATGTCTCCCAGAAAACGAATGTAGATACGTTGTCCTCGACTATCAATACA
AAGAAGAAGGTGCCCAAAAGAGCAAAATCTGTTTTGTTGCCTGGTGCCCAGATACCGCCA
ACATTAAAAAGAAAATGATGGCCACCTCATCAAAAGACTCTTTACGTAAAGCCTGTGTTG
GTATCCAAGTTGAAATCCAAGGTACCGATGCCTCTGAAGTCAAAGATTCATGTTTCTATG
AAAAATGTACCAAAATCTAAATAATTTGAAAAAATTTAAAAAAAAAAXXXXXXXXXXACT
AAATAAAAAACTATATATAAAAAATGTCTTCAGGTATTGCTTTAGCTCCAAACTGCGTTT
CAACCTTCAACGATTTAAAGTTAGGTCGTAAATATGGTGGTATCATCTACAGAATCTCTG
ACGATTCAAAAGAAATCATTGTTGACTCCACCTTACCAGCTGGTTGTTCATTCGATGAAT
TCACCAAATGTCTCCCAGAAAACGAATGTAGATACGTTGTCCTCGACTATCAATACAAAG
AAGAAGGTGCCCAAAAGAGCAAAATCTGTTTTGTTGCCTGGTGCCCAGATACCGCCAACA
TTAAAAAGAAAATGATGGCCACCTCATCAAAAGACTCTTTACGTAAAGCCTGTGTTGGTA
TNNAANNNGAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
lnkklyiknvfrycfssklrfnlqrfkvrs*iwwyhlqnl*rfkrnhc*lhltswlfir*
ihqmsprkrm*ircprlsiqrrrcpkeqnlfcclvpryrqh*kendghlikrlft*slcw
yps*npryrcl*sqrfmfl*KMYQNLNNLKKFKKK---

---LNKKLYIKNVFRYCFSSKLRFNLQRFKVRS*iwwyhlqnl*rfkrnhc*lhltswlf
ir*ihqmsprkrm*ircprlsiqrrrcpkeqnlfcclvpryrqh*kendghlikrlft*s
lcwyxxx
Translated Amino Acid sequence (All Frames) 
Frame A:
tk*ktiykkclqvll*lqtafqpsti*s*vvnmvvsstesltiqkkslltppyqlvvhsm
nspnvsqktnvdtlsstintkkkvpkraksvllpgaqipptlkrk*wpphqktlyvkpvl
vsklkskvpmplkskihvsmknvpksk*feki*kk---

---tk*ktiykkclqvll*lqtafqpsti*s*vvnmvvsstesltiqkkslltppyqlvv
hsmnspnvsqktnvdtlsstintkkkvpkraksvllpgaqipptlkrk*wpphqktlyvk
pvlvxxxk

Frame B:
lnkklyiknvfrycfssklrfnlqrfkvrs*iwwyhlqnl*rfkrnhc*lhltswlfir*
ihqmsprkrm*ircprlsiqrrrcpkeqnlfcclvpryrqh*kendghlikrlft*slcw
yps*npryrcl*sqrfmfl*KMYQNLNNLKKFKKK---

---LNKKLYIKNVFRYCFSSKLRFNLQRFKVRS*iwwyhlqnl*rfkrnhc*lhltswlf
ir*ihqmsprkrm*ircprlsiqrrrcpkeqnlfcclvpryrqh*kendghlikrlft*s
lcwyxxx

Frame C:
*iknyi*kmssgialapncvstfndlklgrkyggiiyrisddskeiivdstlpagcsfde
ftkclpenecryvvldyqykeegaqkskicfvawcpdtanikkkmmatsskdslrkacvg
iqveiqgtdasevkdscfyekctki*ii*knlkkk---

---*iknyi*kmssgialapncvstfndlklgrkyggiiyrisddskeiivdstlpagcs
fdeftkclpenecryvvldyqykeegaqkskicfvawcpdtanikkkmmatsskdslrka
cvgxxxe
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ890 (VSJ890Q) /CSM/VS/VSJ8-D/VSJ890Q.Seq.d/                        835   0.0
VSJ584 (VSJ584Q) /CSM/VS/VSJ5-D/VSJ584Q.Seq.d/                        835   0.0
VSJ550 (VSJ550Q) /CSM/VS/VSJ5-C/VSJ550Q.Seq.d/                        835   0.0
VSJ437 (VSJ437Q) /CSM/VS/VSJ4-B/VSJ437Q.Seq.d/                        835   0.0
VSJ243 (VSJ243Q) /CSM/VS/VSJ2-B/VSJ243Q.Seq.d/                        835   0.0
VSI135 (VSI135Q) /CSM/VS/VSI1-B/VSI135Q.Seq.d/                        835   0.0
VSG665 (VSG665Q) /CSM/VS/VSG6-C/VSG665Q.Seq.d/                        835   0.0
VSD383 (VSD383Q) /CSM/VS/VSD3-D/VSD383Q.Seq.d/                        835   0.0
VSD320 (VSD320Q) /CSM/VS/VSD3-A/VSD320Q.Seq.d/                        835   0.0
VSA646 (VSA646Q) /CSM/VS/VSA6-B/VSA646Q.Seq.d/                        835   0.0
own update 2001.11.13
Homology vs DNA 

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

D37981|D37981.1 Dictyostelium discoidium DDCOF2 gene for cofilin, complete cds.   835  0.0  1
D37980|D37980.1 Dictyostelium discoidium DDCOF1 gene for cofilin, complete cds (exon1-2).   833  0.0  1
X04004|X04004.1 Dictyostelium discoideum mRNA for contact site A (csA) protein.   168  7e-38  1
AC143994|AC143994.1 Macaca mulatta clone CH250-272N23, *** SEQUENCING IN PROGRESS ***, 1 ordered piece.    38  0.66  2
AW399043|AW399043.1 EST309543 L. pennellii trichome, Cornell University Lycopersicon pennellii cDNA clone cLPT5H2 5', mRNA sequence.    34  0.80  2
AC132357|AC132357.1 Mus musculus chromosome UNK clone RP24-120G2, WORKING DRAFT SEQUENCE, 6 unordered pieces.    48  2.8  2
AC096403|AC096403.6 Rattus norvegicus clone CH230-31P8, *** SEQUENCING IN PROGRESS ***, 1 ordered piece.    44  2.8  1
CB579150|CB579150.1 AMGNNUC:NRHY7-00010-A11-A nrhy7 (10850) Rattus norvegicus cDNA clone nrhy7-00010-a11 5', mRNA sequence.    44  2.8  1
J05087|J05087.1 Rat calmodulin-sensitive plasma membrane Ca2+-transporting ATPase (PMCA3) mRNA, complete cds.    44  2.8  1
AC135132|AC135132.2 Rattus norvegicus clone CH230-240G18, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    44  2.8  1
dna update 2003. 7.20
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P54706) RecName: Full=Cofilin-1;  &D37980_1(D37980|pid:none) &D...   280   3e-74
(P37167) RecName: Full=Actophorin;  &M93361_1(M93361|pid:none)        130   5e-29
FM992692_38(FM992692|pid:none) Candida dubliniensis CD36 chromos...   125   2e-27
(Q96VU9) RecName: Full=Cofilin; AltName: Full=Actin-depolymerizi...   125   2e-27
AY428595_1(AY428595|pid:none) Helianthus annuus clone HA10-7 put...   123   6e-27
CP000501_299(CP000501|pid:none) Pichia stipitis CBS 6054 chromos...   120   7e-26
(Q9HF97) RecName: Full=Cofilin; AltName: Full=Actin-depolymerizi...   119   2e-25
(Q6CQ22) RecName: Full=Cofilin; AltName: Full=Actin-depolymerizi...   119   2e-25
(Q03048) RecName: Full=Cofilin; AltName: Full=Actin-depolymerizi...   116   8e-25
EU961226_1(EU961226|pid:none) Zea mays clone 233661 actin-depoly...   116   8e-25
protein update 2009. 3.25
PSORT 

 psg: 0.32  gvh: 0.34  alm: 0.58  top: 0.53  tms: 0.00  mit: 0.56  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 

	 64.0 %: nuclear
	 20.0 %: mitochondrial
	 12.0 %: cytoplasmic
	  4.0 %: endoplasmic reticulum

>> prediction for VSJ550 is nuc
5' end seq. ID VSJ550F
5' end seq. 
>VSJ550F.Seq
ACTAAATAAAAAACTATATATAAAAAATGTCTTCAGGTATTGCTTTAGCTCCAAACTGCG
TTTCAACCTTCAACGATTTAAAGTTAGGTCGTAAATATGGTGGTATCATCTACAGAATCT
CTGACGATTCAAAAGAAATCATTGTTGACTCCACCTTACCAGCTGGTTGTTCATTCGATG
AATTCACCAAATGTCTCCCAGAAAACGAATGTAGATACGTTGTCCTCGACTATCAATACA
AAGAAGAAGGTGCCCAAAAGAGCAAAATCTGTTTTGTTGCCTGGTGCCCAGATACCGCCA
ACATTAAAAAGAAAATGATGGCCACCTCATCAAAAGACTCTTTACGTAAAGCCTGTGTTG
GTATCCAAGTTGAAATCCAAGGTACCGATGCCTCTGAAGTCAAAGATTCATGTTTCTATG
AAAAATGTACCAAAATCTAAATAATTTGAAAAAATTTAAAAAAAAAA----------
Length of 5' end seq. 467
3' end seq. ID VSJ550Z
3' end seq. 
>VSJ550Z.Seq
----------ACTAAATAAAAAACTATATATAAAAAATGTCTTCAGGTATTGCTTTAGCT
CCAAACTGCGTTTCAACCTTCAACGATTTAAAGTTAGGTCGTAAATATGGTGGTATCATC
TACAGAATCTCTGACGATTCAAAAGAAATCATTGTTGACTCCACCTTACCAGCTGGTTGT
TCATTCGATGAATTCACCAAATGTCTCCCAGAAAACGAATGTAGATACGTTGTCCTCGAC
TATCAATACAAAGAAGAAGGTGCCCAAAAGAGCAAAATCTGTTTTGTTGCCTGGTGCCCA
GATACCGCCAACATTAAAAAGAAAATGATGGCCACCTCATCAAAAGACTCTTTACGTAAA
GCCTGTGTTGGTATNNAANNNGAAA
Length of 3' end seq. 375
Connected seq. ID VSJ550P
Connected seq. 
>VSJ550P.Seq
ACTAAATAAAAAACTATATATAAAAAATGTCTTCAGGTATTGCTTTAGCTCCAAACTGCG
TTTCAACCTTCAACGATTTAAAGTTAGGTCGTAAATATGGTGGTATCATCTACAGAATCT
CTGACGATTCAAAAGAAATCATTGTTGACTCCACCTTACCAGCTGGTTGTTCATTCGATG
AATTCACCAAATGTCTCCCAGAAAACGAATGTAGATACGTTGTCCTCGACTATCAATACA
AAGAAGAAGGTGCCCAAAAGAGCAAAATCTGTTTTGTTGCCTGGTGCCCAGATACCGCCA
ACATTAAAAAGAAAATGATGGCCACCTCATCAAAAGACTCTTTACGTAAAGCCTGTGTTG
GTATCCAAGTTGAAATCCAAGGTACCGATGCCTCTGAAGTCAAAGATTCATGTTTCTATG
AAAAATGTACCAAAATCTAAATAATTTGAAAAAATTTAAAAAAAAAA----------ACT
AAATAAAAAACTATATATAAAAAATGTCTTCAGGTATTGCTTTAGCTCCAAACTGCGTTT
CAACCTTCAACGATTTAAAGTTAGGTCGTAAATATGGTGGTATCATCTACAGAATCTCTG
ACGATTCAAAAGAAATCATTGTTGACTCCACCTTACCAGCTGGTTGTTCATTCGATGAAT
TCACCAAATGTCTCCCAGAAAACGAATGTAGATACGTTGTCCTCGACTATCAATACAAAG
AAGAAGGTGCCCAAAAGAGCAAAATCTGTTTTGTTGCCTGGTGCCCAGATACCGCCAACA
TTAAAAAGAAAATGATGGCCACCTCATCAAAAGACTCTTTACGTAAAGCCTGTGTTGGTA
TNNAANNNGAAA
Length of connected seq. 842
Full length Seq ID -
Full length Seq. -
Length of full length seq. -