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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
VSD553
Library VS
(Link to library)
Clone ID VSD553
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16505-1
Original site URL
Representative seq. ID VSD553P
(Link to Original site)
Representative DNA sequence 
>VSD553 (VSD553Q) /CSM/VS/VSD5-C/VSD553Q.Seq.d/
GATAAATGTATCTTTTTTGTACCAATTAATCGTGATGATGCCTTCACTCTTCGTTATCAA
GATAATACATGGGATCCAGTTGAATATGATGTTTTAATTGATTACTTGGGTCAAAATCAA
GATAAATGGTTTTCTGGTGGTTTACCATGAAAATAATAATAATAATAATAATAATAATTA
TATAAATTACATAAAGGTTTCACTATTGGTGTTTTAATCCTGGTATAAATAAAATTCTAA
AAATAAAAAATAAAAAACTATATAAAAATTAAAAAAAAAAXXXXXXXXXXGATAAATGTA
TCTTTTTTGTACCAATTAATCGTGATGATGCCTTCACTCTTCGTTATCAAGATAATACAT
GGGATCCAGTTGAATATGATGTTTTAATTGATTACTTGGGTCAAAATCAAGATAAATGGT
TTTCTGGTGGTTTACCATGAAAATAATAATAATAATAATAATAATAATTATATAAATTAC
ATAAAGGTTTCACTATTGGTGTTTTAATCCTGGTATAAATAAAATTCTAAAAATAAAAAA
TAAAAAACTATA
sequence update 2001. 3.22
Translated Amino Acid sequence 
dkciffvpinrddaftlryqdntwdpveydvlidylgqnqdkwfsgglp*k********l
yklhkgftigvlilv*ikf*k*KIKNYIKIKKK---

---DKCIFFVPINRDDAFTLRYQDNTWDPVEYDVLIDYLGQNQDKWFSGGLP*k******
**lyklhkgftigvlilv*ikf*k*kikny
Translated Amino Acid sequence (All Frames) 
Frame A:
dkciffvpinrddaftlryqdntwdpveydvlidylgqnqdkwfsgglp*k********l
yklhkgftigvlilv*ikf*k*KIKNYIKIKKK---

---DKCIFFVPINRDDAFTLRYQDNTWDPVEYDVLIDYLGQNQDKWFSGGLP*k******
**lyklhkgftigvlilv*ikf*k*kikny

Frame B:
invsflyqlivmmpslfvikiihgiqlnmmf*litwvkikingflvvyhennnnnnnnny
inyikvsllvf*swyk*nsknkk*kti*klkkk---

---invsflyqlivmmpslfvikiihgiqlnmmf*litwvkikingflvvyhennnnnnn
nnyinyikvsllvf*swyk*nsknkk*kti

Frame C:
*mylfctn*s**clhsslsr*ymgss*i*cfn*llgsksr*mvfwwftmkiiiiiiiiii
*it*rfhywcfnpginkilkiknkklykn*kk---

---*mylfctn*s**clhsslsr*ymgss*i*cfn*llgsksr*mvfwwftmkiiiiiii
iii*it*rfhywcfnpginkilkiknkkl
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK377 (VSK377Q) /CSM/VS/VSK3-D/VSK377Q.Seq.d/                        299   2e-80
VSJ788 (VSJ788Q) /CSM/VS/VSJ7-D/VSJ788Q.Seq.d/                        299   2e-80
VSJ730 (VSJ730Q) /CSM/VS/VSJ7-B/VSJ730Q.Seq.d/                        299   2e-80
VSI304 (VSI304Q) /CSM/VS/VSI3-A/VSI304Q.Seq.d/                        299   2e-80
VSI168 (VSI168Q) /CSM/VS/VSI1-C/VSI168Q.Seq.d/                        299   2e-80
VSF487 (VSF487Q) /CSM/VS/VSF4-D/VSF487Q.Seq.d/                        299   2e-80
VSF255 (VSF255Q) /CSM/VS/VSF2-C/VSF255Q.Seq.d/                        299   2e-80
VSF188 (VSF188Q) /CSM/VS/VSF1-D/VSF188Q.Seq.d/                        299   2e-80
VSE526 (VSE526Q) /CSM/VS/VSE5-B/VSE526Q.Seq.d/                        299   2e-80
VSD792 (VSD792Q) /CSM/VS/VSD7-D/VSD792Q.Seq.d/                        299   2e-80
own update 2001.11.12
Homology vs DNA 

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

U48706|U48706.1 Dictyostelium discoideum small aggregate formation (smlA) gene, complete cds.   299  4e-97  2
X94341|X94341.1 D.discoideum mRNA for unknown protein with homology to spore germination protein.    86  5e-13  1
AC108774|AC108774.6 Mus musculus clone RP23-249J23, *** SEQUENCING IN PROGRESS ***, 4 ordered pieces.    44  1.8  1
CC062182|CC062182.1 ugma001e004c03f0 ugma unfiltered library (LibID: 146) Glycine max genomic clone ugma001e004c03, DNA sequence.    32  2.8  2
AC111827|AC111827.4 Rattus norvegicus clone CH230-272N5, *** SEQUENCING IN PROGRESS ***, 16 unordered pieces.    36  6.0  2
BI746776|BI746776.1 rm31f06.y1 Meloidogyne arenaria egg pAMP1 v1 Chiapelli McCarter Meloidogyne arenaria cDNA 5' similar to TR:O01826 O01826 COSMID C53H9. [1] ;, mRNA sequence.    42  7.1  1
AC009845|AC009845.7 Drosophila melanogaster, chromosome 2L, region 25A-25B, BAC clone BACR04C19, complete sequence.    42  7.1  1
AC009749|AC009749.8 Drosophila melanogaster, chromosome 2L, region 25B-25C, BAC clone BACR40I04, complete sequence.    42  7.1  1
AC017189|AC017189.1 Drosophila melanogaster, WORKING DRAFT SEQUENCE, in ordered pieces.    42  7.1  1
AE003575|AE003575.4 Drosophila melanogaster chromosome 2L section 16 of 83 of the complete sequence.    42  7.1  1
dna update 2003. 8.22
Homology vs Protein 

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3268448
Number of Hits to DB: 717,031,979
protein update 2009. 7.29
PSORT 

 psg: 0.72  gvh: 0.29  alm: 0.54  top: 0.53  tms: 0.00  mit: 0.22  mip: 0.00
 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 

	 44.0 %: nuclear
	 32.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: peroxisomal

>> prediction for VSD553 is nuc
5' end seq. ID VSD553F
5' end seq. 
>VSD553F.Seq
GATAAATGTATCTTTTTTGTACCAATTAATCGTGATGATGCCTTCACTCTTCGTTATCAA
GATAATACATGGGATCCAGTTGAATATGATGTTTTAATTGATTACTTGGGTCAAAATCAA
GATAAATGGTTTTCTGGTGGTTTACCATGAAAATAATAATAATAATAATAATAATAATTA
TATAAATTACATAAAGGTTTCACTATTGGTGTTTTAATCCTGGTATAAATAAAATTCTAA
AAATAAAAAATAAAAAACTATATAAAAATTAAAAAAAAAA----------
Length of 5' end seq. 280
3' end seq. ID VSD553Z
3' end seq. 
>VSD553Z.Seq
----------GATAAATGTATCTTTTTTGTACCAATTAATCGTGATGATGCCTTCACTCT
TCGTTATCAAGATAATACATGGGATCCAGTTGAATATGATGTTTTAATTGATTACTTGGG
TCAAAATCAAGATAAATGGTTTTCTGGTGGTTTACCATGAAAATAATAATAATAATAATA
ATAATAATTATATAAATTACATAAAGGTTTCACTATTGGTGTTTTAATCCTGGTATAAAT
AAAATTCTAAAAATAAAAAATAAAAAACTATA
Length of 3' end seq. 262
Connected seq. ID VSD553P
Connected seq. 
>VSD553P.Seq
GATAAATGTATCTTTTTTGTACCAATTAATCGTGATGATGCCTTCACTCTTCGTTATCAA
GATAATACATGGGATCCAGTTGAATATGATGTTTTAATTGATTACTTGGGTCAAAATCAA
GATAAATGGTTTTCTGGTGGTTTACCATGAAAATAATAATAATAATAATAATAATAATTA
TATAAATTACATAAAGGTTTCACTATTGGTGTTTTAATCCTGGTATAAATAAAATTCTAA
AAATAAAAAATAAAAAACTATATAAAAATTAAAAAAAAAA----------GATAAATGTA
TCTTTTTTGTACCAATTAATCGTGATGATGCCTTCACTCTTCGTTATCAAGATAATACAT
GGGATCCAGTTGAATATGATGTTTTAATTGATTACTTGGGTCAAAATCAAGATAAATGGT
TTTCTGGTGGTTTACCATGAAAATAATAATAATAATAATAATAATAATTATATAAATTAC
ATAAAGGTTTCACTATTGGTGTTTTAATCCTGGTATAAATAAAATTCTAAAAATAAAAAA
TAAAAAACTATA
Length of connected seq. 542
Full length Seq ID -
Full length Seq. -
Length of full length seq. -