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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
AFF478
Library AF
(Link to library)
Clone ID AFF478
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U02608-1
Original site URL
Representative seq. ID AFF478Z
(Link to Original site)
Representative DNA sequence 
>AFF478 (AFF478Q) /CSM/AF/AFF4-D/AFF478Q.Seq.d/
XXXXXXXXXXGAAAAAGAATAATAGTGTAATTTTTATTGATGAAGTTGATTCTTTATGTT
CATCACGTAATGATCAAGAATCTGAATCAGCAAGACGTATAAAGACAGAGTTTCTCATTC
AAATGAATGGTGTTGGTAATGATTCCGATGGTATATTGGTATTGGCAGCAACAAATATTC
CATGGGGTTTGGATTTAGCAATTCGTAGACGTTTTGAAAAGAGAATATATATCGGTTTAC
CAGAACCACAAGCAAGAGCCAAAATGTTTCAAATTCATATTGGTTCAACTCCAAATACAT
TAGTTCAAGCAGATTATAAAAAGTTGGCAGATTTAACCGAGGGTTACTCGGGTTCAGATA
TTGGTTCATTGGTAAAGGATGCAATTATGCAACCAGTTCGTGCAGTTCAATGTGCAACTC
ATTTCAAACAAATTAGAGCACCCTCTAGAGAGGATCCTTCAGTTATGACCGATTATGTCA
CACCTTGTTCACCTGGTGATCCATTGGCTCAAGAGATGACTTGGATGGATATTGACCCAA
CTAAATTAAAAGAACCTGAAATTACAATCGCCGATTGTTTAAAGAGTTTAAGAGTTATTA
AACCATCTGTTAATAAAGCTGATTTAGTATAGATATGT
sequence update 2001. 6. 2
Translated Amino Acid sequence 
---KKNNSVIFIDEVDSLCSSRNDQESESARRIKTEFLIQMNGVGNDSDGILVLAATNIP
WGLDLAIRRRFEKRIYIGLPEPQARAKMFQIHIGSTPNTLVQADYKKLADLTEGYSGSDI
GSLVKDAIMQPVRAVQCATHFKQIRAPSREDPSVMTDYVTPCSPGDPLAQEMTWMDIDPT
KLKEPEITIADCLKSLRVIKPSVNKADLV*ic
Translated Amino Acid sequence (All Frames) 
Frame A:
---KKNNSVIFIDEVDSLCSSRNDQESESARRIKTEFLIQMNGVGNDSDGILVLAATNIP
WGLDLAIRRRFEKRIYIGLPEPQARAKMFQIHIGSTPNTLVQADYKKLADLTEGYSGSDI
GSLVKDAIMQPVRAVQCATHFKQIRAPSREDPSVMTDYVTPCSPGDPLAQEMTWMDIDPT
KLKEPEITIADCLKSLRVIKPSVNKADLV*ic


Frame B:
---kriiv*fllmklilyvhhvmiknlnqqdv*rqsfsfk*mvlvmipmvywywqqqifh
gvwi*qfvdvlkreyisvyqnhkqepkcfkfilvqlqih*fkqiikswqi*prvtrvqil
vhw*rmqlcnqfvqfnvqlisnklehplerilql*pimshlvhlvihwlkr*lgwiltql
n*knlklqspiv*rv*ellnhllikli*yry


Frame C:
---ke**cnfy**s*ffmfit**sri*isktykdrvshsnewcw**frwyigigsnkysm
gfgfsns*tf*keniyrftrttsksqnvsnsywfnskyisssrl*kvgrfnrgllgfryw
figkgcnyatsscssmcnsfqtn*stl*rgsfsydrlchtlftw*sigsrddldgy*pn*
ikrt*nynrrlfkefksy*tic**s*fsidm
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFF478 (AFF478Q) /CSM/AF/AFF4-D/AFF478Q.Seq.d/                       1245   0.0
SSJ446 (SSJ446Q) /CSM/SS/SSJ4-B/SSJ446Q.Seq.d/                       1178   0.0
SSA176 (SSA176Q) /CSM/SS/SSA1-D/SSA176Q.Seq.d/                       1138   0.0
SSB762 (SSB762Q) /CSM/SS/SSB7-C/SSB762Q.Seq.d/                        496   e-139
SLJ282 (SLJ282Q) /CSM/SL/SLJ2-D/SLJ282Q.Seq.d/                        396   e-109
SSI783 (SSI783Q) /CSM/SS/SSI7-D/SSI783Q.Seq.d/                        256   4e-67
AFE779 (AFE779Q) /CSM/AF/AFE7-D/AFE779Q.Seq.d/                        153   4e-36
VFG111 (VFG111Q) /CSM/VF/VFG1-A/VFG111Q.Seq.d/                         40   0.040
CHL686 (CHL686Q) /CSM/CH/CHL6-D/CHL686Q.Seq.d/                         40   0.040
VHM623 (VHM623Q) /CSM/VH/VHM6-A/VHM623Q.Seq.d/                         36   0.63
own update 2002. 9.16
Homology vs DNA 

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

BI745667|BI745667.1 rk83g09.y4 Meloidogyne javanica egg pAMP1 v6 Chiapelli McCarterPROTEIN. [1] ;, mRNA sequence.    64   3e-11  2
CD080841|CD080841.1 MA3-9999U-M315-E10-U.B MA3-0001 Schistosoma mansoni cDNA clone MA3-9999U-M315-E10.B, mRNA sequence.    38   4e-10  4
CD190528|CD190528.1 MS1-0064U-A263-A04-U.B MS1-0064 Schistosoma mansoni cDNA clone MS1-0064U-A263-A04.B, mRNA sequence.    38   4e-10  4
CD184281|CD184281.1 MS1-0044T-R200-A01-U.G MS1-0044 Schistosoma mansoni cDNA clone MS1-0044T-R200-A01.G, mRNA sequence.    38   4e-10  4
CD178977|CD178977.1 MS1-0014P-A285-G05-U.G MS1-0014 Schistosoma mansoni cDNA clone MS1-0014P-A285-G05.G, mRNA sequence.    32   2e-08  4
CF400358|CF400358.1 RTWW1_4_D05.g1_A015 Well-watered loblolly pine roots WW1 Pinus taeda cDNA clone RTWW1_4_D05_A015 5', mRNA sequence.    54   2e-07  2
CF400261|CF400261.1 RTWW1_4_D05.b1_A015 Well-watered loblolly pine roots WW1 Pinus taeda cDNA clone RTWW1_4_D05_A015 3', mRNA sequence.    54   2e-07  2
CD492322|CD492322.1 RGMP 63 Touchdown PCR for candidate resistance genes pg FG 11-32 Haematobia irritans irritans cDNA similar to Vacuolar sorting protein SKD1, mRNA sequence.    58   2e-04  1
L33456|L33456.1 Schizosaccharomyces pombe supressor protein, complete cds.    38   0.026  3
BU794753|BU794753.1 SJF2DHA09 SJF Schistosoma japonicum cDNA, mRNA sequence.    38   0.028  2
dna update 2004. 4.24
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54PT2) RecName: Full=Vacuolar protein sorting-associating prot...   409   e-113
AJ719395_1(AJ719395|pid:none) Gallus gallus mRNA for hypothetica...   278   1e-73
AJ720732_1(AJ720732|pid:none) Gallus gallus mRNA for hypothetica...   278   1e-73
AF038960_1(AF038960|pid:none) Homo sapiens SKD1 homolog mRNA, co...   274   2e-72
(Q5R658) RecName: Full=Vacuolar protein sorting-associating prot...   271   8e-72
(O75351) RecName: Full=Vacuolar protein sorting-associating prot...   271   8e-72
AK291253_1(AK291253|pid:none) Homo sapiens cDNA FLJ75934 complet...   271   1e-71
BC055202_1(BC055202|pid:none) Danio rerio vacuolar protein sorti...   270   2e-71
CU207344_1(CU207344|pid:none) Zebrafish DNA sequence from clone ...   270   2e-71
BC152663_1(BC152663|pid:none) Danio rerio vacuolar protein sorti...   270   2e-71
protein update 2009. 4.20
PSORT 

 psg: 0.63  gvh: 0.43  alm: 0.35  top: 0.53  tms: 0.00  mit: 0.17  mip: 0.00
 nuc: 0.00  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 

	 68.0 %: cytoplasmic
	 24.0 %: nuclear
	  4.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for AFF478 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID AFF478Z
3' end seq. 
>AFF478Z.Seq
----------GAAAAAGAATAATAGTGTAATTTTTATTGATGAAGTTGATTCTTTATGTT
CATCACGTAATGATCAAGAATCTGAATCAGCAAGACGTATAAAGACAGAGTTTCTCATTC
AAATGAATGGTGTTGGTAATGATTCCGATGGTATATTGGTATTGGCAGCAACAAATATTC
CATGGGGTTTGGATTTAGCAATTCGTAGACGTTTTGAAAAGAGAATATATATCGGTTTAC
CAGAACCACAAGCAAGAGCCAAAATGTTTCAAATTCATATTGGTTCAACTCCAAATACAT
TAGTTCAAGCAGATTATAAAAAGTTGGCAGATTTAACCGAGGGTTACTCGGGTTCAGATA
TTGGTTCATTGGTAAAGGATGCAATTATGCAACCAGTTCGTGCAGTTCAATGTGCAACTC
ATTTCAAACAAATTAGAGCACCCTCTAGAGAGGATCCTTCAGTTATGACCGATTATGTCA
CACCTTGTTCACCTGGTGATCCATTGGCTCAAGAGATGACTTGGATGGATATTGACCCAA
CTAAATTAAAAGAACCTGAAATTACAATCGCCGATTGTTTAAAGAGTTTAAGAGTTATTA
AACCATCTGTTAATAAAGCTGATTTAGTATAGATATGT
Length of 3' end seq. 628
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -