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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
SHD549
Library SH
(Link to library)
Clone ID SHD549
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16417-1|Contig-U16580-1
Original site URL
Representative seq. ID SHD549P
(Link to Original site)
Representative DNA sequence 
>SHD549 (SHD549Q) /CSM/SH/SHD5-C/SHD549Q.Seq.d/
AGTAATAATATTGGAAAAAAAAAAAATAATAATNGTAATAATATAATTTTTAAANCTNCC
AANCAATAATAATATNGGGAAAAAAAAAAANCCNAAAAAAAAAXXXXXXXXXXGCAAATA
GTGGTGNTGCAACTGNAGCAAATAGTGGCGCTGCAACTGGAGCAAATAGTGGTGCTGCAA
CTGGTGCAAATAGTGNAANCAATGCCGCTGTAACTGGTGCTGCAAATGGAAATAATGGCG
CTGCAGCTGGAGCAAATAGTGGTGCCGCAACTGCTGCAAATAGTGGTGCCGCAACTGCTG
CAAATAGTGGTGCCGCAACTGCTGCAAATAGAGGAAACAATGCCGCTGCAACTGGTGCTG
CAAATGGAAATAATGGCGCTGCAGCTGGAGCAAATAGTGGTGCCGCAACTGCTGCAAATA
GTGGTGCTGCAAATAGTGGTGCTGCAACTGCTGCAAATAGTGGTGCTGCAGCTGGAGCAA
ATAGTGGTGCTGCAACTGCTGCAAATAGTGGCGCTGCAACTGCTGCAAGTGGTGGAAATG
GTGCAAGTGGTGCTGCAAACCCTGGTTCAATAGTAACTCCAAATGATCAAAATGTTTCTC
CATTATCGAACTCTGATGCTGCAGCAACCGCAGCATCAACTACAGGCAGAAACCCAAGAA
ATCCAACAAGTAGAGCTCCAACGGTCACACCAACGCCAACCTCTTCAGCTGAAGAACCAG
CTGCTGG
sequence update 2002.10.25
Translated Amino Acid sequence 
viilekkkiixvii*FLXLPXNNNXGKKKXPKKK---

---ANSGXATXANSGAATGANSGAATGANSXXNAAVTGAANGNNGAAAGANSGAATAANS
GAATAANSGAATAANRGNNAAATGAANGNNGAAAGANSGAATAANSGAANSGAATAANSG
AAAGANSGAATAANSGAATAASGGNGASGAANPGSIVTPNDQNVSPLSNSDAAATAASTT
GRNPRNPTSRAPTVTPTPTSSAEEPAA
Translated Amino Acid sequence (All Frames) 
Frame A:
snnigkkknnnxnniifkxxxq**yxekkkxxkk---

---ANSGXATXANSGAATGANSGAATGANSXXNAAVTGAANGNNGAAAGANSGAATAANS
GAATAANSGAATAANRGNNAAATGAANGNNGAAAGANSGAATAANSGAANSGAATAANSG
AAAGANSGAATAANSGAATAASGGNGASGAANPGSIVTPNDQNVSPLSNSDAAATAASTT
GRNPRNPTSRAPTVTPTPTSSAEEPAA

Frame B:
viilekkkiixvii*FLXLPXNNNXGKKKXPKKK---

---qivvxqlxqivalqleqivvlqlvqivxxmpl*lvlqmeimalqleqivvpqllqiv
vpqllqivvpqllqieetmplqlvlqmeimalqleqivvpqllqivvlqivvlqllqivv
lqleqivvlqllqivalqllqvvemvqvvlqtlvq**lqmikmflhyrtlmlqqpqhqlq
aetqeiqqvelqrshqrqplqlknqll

Frame C:
**ywkkkk**x**ynf*xxqxiiixgkkkxxkk---

---k*wxcnxsk*wrcnwsk*wccnwck*xxqcrcnwcckwk*wrcswsk*wcrncck*w
crncck*wcrncck*rkqcrcnwcckwk*wrcswsk*wcrncck*wcck*wccncck*wc
cswsk*wccncck*wrcncckwwkwckwcckpwfnsnsk*skcfsiiel*ccsnrsinyr
qkpkksnk*ssnghtnanlfs*rtscw
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHK112 (SHK112Q) /CSM/SH/SHK1-A/SHK112Q.Seq.d/                       1193   0.0
SHD549 (SHD549Q) /CSM/SH/SHD5-C/SHD549Q.Seq.d/                       1193   0.0
SHA440 (SHA440Q) /CSM/SH/SHA4-B/SHA440Q.Seq.d/                       1193   0.0
CHI407 (CHI407Q) /CSM/CH/CHI4-A/CHI407Q.Seq.d/                       1193   0.0
AHK645 (AHK645Q) /CSM/AH/AHK6-B/AHK645Q.Seq.d/                       1193   0.0
SSD263 (SSD263Q) /CSM/SS/SSD2-C/SSD263Q.Seq.d/                       1191   0.0
SHA456 (SHA456Q) /CSM/SH/SHA4-C/SHA456Q.Seq.d/                       1189   0.0
AHL869 (AHL869Q) /CSM/AH/AHL8-C/AHL869Q.Seq.d/                       1187   0.0
SLH856 (SLH856Q) /CSM/SL/SLH8-C/SLH856Q.Seq.d/                       1185   0.0
SHG517 (SHG517Q) /CSM/SH/SHG5-A/SHG517Q.Seq.d/                       1185   0.0
own update 2003.10. 8
Homology vs DNA 

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

CK783714|CK783714.1 UI-D-GC1-aau-c-07-0-UI.s1 UI-D-GC1 Alexandrium tamarense cDNA cloneUI-D-GC1-aau-c-07-0-UI 3', mRNA sequence.    30   0.004  3
DT338982|DT338982.1 JBW092C02.b_012.abi Pineapple week 5-10 nematode-infected gall cDNA library Ananas comosus cDNA clone JBW092C02 similar to undiscovered sequence, mRNA sequence.    30   0.004  3
AC141063|AC141063.1 Homo sapiens chromosome 16 clone RP11-1256C5, WORKING DRAFT SEQUENCE, 11 unordered pieces.    30   0.009  3
AC141261|AC141261.1 Homo sapiens chromosome 16 clone RP11-1335J10, WORKING DRAFT SEQUENCE, 4 unordered pieces.    28   0.031  3
AC167065|AC167065.1 Xenopus tropicalis clone ISB1-217D23, WORKING DRAFT SEQUENCE, 2 unordered pieces.    28   0.036  3
AY887028|AY887028.1 Ophiostoma novo-ulmi subsp. novo-ulmi isolate R66 MAT-1-2 gene, complete cds.    34   0.19   2
AY887027|AY887027.1 Ophiostoma novo-ulmi subsp. novo-ulmi isolate YU1 MAT-1-2 gene, complete cds.    34   0.19   2
AY887029|AY887029.1 Ophiostoma novo-ulmi subsp. novo-ulmi isolate V19 MAT-1-2 gene, complete cds.    34   0.19   2
DQ013872|DQ013872.1 Ophiostoma novo-ulmi isolate V1 mating type 3' flanking region genomic sequence.    34   0.20   2
CJ765123|CJ765123.1 Ipomoea nil cDNA clone:jmsf35i02, 3' end.      48   0.27   1
dna update 2006. 2. 3
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54GV8) RecName: Full=Uncharacterized transmembrane protein DDB...    53   1e-05
U87912_1(U87912|pid:none) Dictyostelium discoideum MAP kinase ki...    37   0.59
CP000471_2084(CP000471|pid:none) Magnetococcus sp. MC-1, complet...    35   2.9
S68824(S68824)rngB protein, cytosolic - slime mold (Dictyosteliu...    34   5.0
(Q7M3S9) RecName: Full=RING finger protein B;          Short=Pro...    34   5.0
AC116979_82(AC116979|pid:none) Dictyostelium discoideum chromoso...    33   6.5
AY428796_1(AY428796|pid:none) Dictyostelium discoideum DIF insen...    33   8.5
(Q6CPW4) RecName: Full=Transcription activator MSS11;  &CR382125...    33   8.5
AC116956_6(AC116956|pid:none) Dictyostelium discoideum chromosom...    33   8.5
protein update 2009. 4.16
PSORT 

 psg: 0.75  gvh: 0.47  alm: 0.54  top: 0.53  tms: 0.00  mit: 0.06  mip: 0.15
 nuc: 0.09  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 

	 40.0 %: nuclear
	 32.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  8.0 %: Golgi
	  4.0 %: mitochondrial
	  4.0 %: vacuolar

>> prediction for SHD549 is nuc
5' end seq. ID SHD549F
5' end seq. 
>SHD549F.Seq
AGTAATAATATTGGAAAAAAAAAAAATAATAATNGTAATAATATAATTTTTAAANCTNCC
AANCAATAATAATATNGGGAAAAAAAAAAANCCNAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 113
3' end seq. ID SHD549Z
3' end seq. 
>SHD549Z.Seq
NNNNNNNNNNGCAAATAGTGGTGNTGCAACTGNAGCAAATAGTGGCGCTGCAACTGGAGC
AAATAGTGGTGCTGCAACTGGTGCAAATAGTGNAANCAATGCCGCTGTAACTGGTGCTGC
AAATGGAAATAATGGCGCTGCAGCTGGAGCAAATAGTGGTGCCGCAACTGCTGCAAATAG
TGGTGCCGCAACTGCTGCAAATAGTGGTGCCGCAACTGCTGCAAATAGAGGAAACAATGC
CGCTGCAACTGGTGCTGCAAATGGAAATAATGGCGCTGCAGCTGGAGCAAATAGTGGTGC
CGCAACTGCTGCAAATAGTGGTGCTGCAAATAGTGGTGCTGCAACTGCTGCAAATAGTGG
TGCTGCAGCTGGAGCAAATAGTGGTGCTGCAACTGCTGCAAATAGTGGCGCTGCAACTGC
TGCAAGTGGTGGAAATGGTGCAAGTGGTGCTGCAAACCCTGGTTCAATAGTAACTCCAAA
TGATCAAAATGTTTCTCCATTATCGAACTCTGATGCTGCAGCAACCGCAGCATCAACTAC
AGGCAGAAACCCAAGAAATCCAACAAGTAGAGCTCCAACGGTCACACCAACGCCAACCTC
TTCAGCTGAAGAACCAGCTGCTGG
Length of 3' end seq. 624
Connected seq. ID SHD549P
Connected seq. 
>SHD549P.Seq
AGTAATAATATTGGAAAAAAAAAAAATAATAATNGTAATAATATAATTTTTAAANCTNCC
AANCAATAATAATATNGGGAAAAAAAAAAANCCNAAAAAAAAA----------GCAAATA
GTGGTGNTGCAACTGNAGCAAATAGTGGCGCTGCAACTGGAGCAAATAGTGGTGCTGCAA
CTGGTGCAAATAGTGNAANCAATGCCGCTGTAACTGGTGCTGCAAATGGAAATAATGGCG
CTGCAGCTGGAGCAAATAGTGGTGCCGCAACTGCTGCAAATAGTGGTGCCGCAACTGCTG
CAAATAGTGGTGCCGCAACTGCTGCAAATAGAGGAAACAATGCCGCTGCAACTGGTGCTG
CAAATGGAAATAATGGCGCTGCAGCTGGAGCAAATAGTGGTGCCGCAACTGCTGCAAATA
GTGGTGCTGCAAATAGTGGTGCTGCAACTGCTGCAAATAGTGGTGCTGCAGCTGGAGCAA
ATAGTGGTGCTGCAACTGCTGCAAATAGTGGCGCTGCAACTGCTGCAAGTGGTGGAAATG
GTGCAAGTGGTGCTGCAAACCCTGGTTCAATAGTAACTCCAAATGATCAAAATGTTTCTC
CATTATCGAACTCTGATGCTGCAGCAACCGCAGCATCAACTACAGGCAGAAACCCAAGAA
ATCCAACAAGTAGAGCTCCAACGGTCACACCAACGCCAACCTCTTCAGCTGAAGAACCAG
CTGCTGG
Length of connected seq. 717
Full length Seq ID -
Full length Seq. -
Length of full length seq. -