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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
CHD239
Library CH
(Link to library)
Clone ID CHD239
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13845-1
Original site URL
Representative seq. ID CHD239P
(Link to Original site)
Representative DNA sequence 
>CHD239 (CHD239Q) /CSM/CH/CHD2-B/CHD239Q.Seq.d/
AATTTTTATCACACACACAAAAACATTTTTAGATAATTATTTAGACCACACACATTTTAC
ACGCACGCACAATACGTTAGAATATATAATTATATTAATATACGATAAAAAAACATTATA
CAGCAAACGCAAATTATTGTATCTTTCAAATTAAAAAAAAAAXXXXXXXXXXGATTTCCA
AGATGATAATATAATTGAAGAAGAGGATCCAGCTGTATTATCAAAAAATAATNAAACAAC
AACTACTNCAACAGCTAACAACAATAATAATAATAATTCAGAAAATAAAGTTGAAGATAA
TGATAATATTTTACGGACTCGGACATATGATATTTCAATCACTTATGATAAATATTATCA
AACNCCAANAGTTTGGTTATTTGGATATGATGAAAATAGAAAACCCCTGAAACCAGAAGA
AATCTTTGAAGATATTTCAGAAGATCATGCACATAAAACTGTCNCAATCGANAGCCNCCC
NCATTTAGGNATCTCATTTGCANACATTCATCCATGTANACATGCTGCCGTCATGAAAAA
ATTGGTTGANAGACAATCCGAAAATGGTAA
sequence update 2002.10.25
Translated Amino Acid sequence 
flshtqkhf*iii*tthilhartir*ni*ly*YTIKKHYTANANYCIFQIKKK---

---DFQDDNIIEEEDPAVLSKNNXTTTTXTANNNNNNNSENKVEDNDNILRTRTYDISIT
YDKYYQTPXVWLFGYDENRKPLKPEEIFEDISEDHAHKTVXIXSXPHLGISFAXIHPCXH
AAVMKKLVXRQSENG
Translated Amino Acid sequence (All Frames) 
Frame A:
nfyhthknifr*lfrphtfythaqyvriynyinir*kniiqqtqiivsfklkkk---

---DFQDDNIIEEEDPAVLSKNNXTTTTXTANNNNNNNSENKVEDNDNILRTRTYDISIT
YDKYYQTPXVWLFGYDENRKPLKPEEIFEDISEDHAHKTVXIXSXPHLGISFAXIHPCXH
AAVMKKLVXRQSENG

Frame B:
ifithtktfldnyldhthftrthntleyiiiliydkktlyskrkllylsn*kk---

---iskmii*lkkriqlyyqkixkqqllqqlttiiiiiqkiklkimiifyglghmifqsl
miniikxqxfgyldmmkienp*nqkkslkifqkimhiklsqsxaxxi*xshlxtfihvxm
lps*knwlxdnpkmv

Frame C:
flshtqkhf*iii*tthilhartir*ni*ly*YTIKKHYTANANYCIFQIKKK---

---fpr**yn*rrgssciikk*xnnnyxns*qq****frk*s*r***yftdsdi*yfnhl
**ilsnxxslviwi**k*ktpetrrnl*ryfrrsct*ncxnrxppxfrxlicxhssmxtc
crhekig*xtirkw*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHD239 (CHD239Q) /CSM/CH/CHD2-B/CHD239Q.Seq.d/                        718   0.0
VFI445 (VFI445Q) /CSM/VF/VFI4-B/VFI445Q.Seq.d/                        690   0.0
CHB458 (CHB458Q) /CSM/CH/CHB4-C/CHB458Q.Seq.d/                        690   0.0
AFO525 (AFO525Q) /CSM/AF/AFO5-B/AFO525Q.Seq.d/                        688   0.0
SLB748 (SLB748Q) /CSM/SL/SLB7-B/SLB748Q.Seq.d/                        686   0.0
AFM817 (AFM817Q) /CSM/AF/AFM8-A/AFM817Q.Seq.d/                        686   0.0
SFI461 (SFI461Q) /CSM/SF/SFI4-C/SFI461Q.Seq.d/                        684   0.0
AFI740 (AFI740Q) /CSM/AF/AFI7-B/AFI740Q.Seq.d/                        684   0.0
CFJ696 (CFJ696Q) /CSM/CF/CFJ6-D/CFJ696Q.Seq.d/                        680   0.0
CFH171 (CFH171Q) /CSM/CF/CFH1-C/CFH171Q.Seq.d/                        680   0.0
own update 2009. 4. 4
Homology vs DNA 

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

AE014824|AE014824.1 Plasmodium falciparum 3D7 chromosome 14 section 9 of 13 of the complete sequence.    42   2e-14  13
AE014828|AE014828.1 Plasmodium falciparum 3D7 chromosome 14 section 13 of 13 of the complete sequence.    42   6e-12  13
AL844507|AL844507.1 Plasmodium falciparum chromosome 8.            46   1e-10  7
AL929355|AL929355.1 Plasmodium falciparum strain 3D7, chromosome 9; segment 1/5.    46   4e-10  9
AE014821|AE014821.1 Plasmodium falciparum 3D7 chromosome 14 section 6 of 13 of the complete sequence.    44   6e-10  11
AL035476|AL035476.7 Plasmodium falciparum MAL4P3.                  44   9e-10  11
BU582697|BU582697.1 rc67g08.y2 Meloidogyne hapla egg SL1 TOPO v1 Meloidogyne hapla cDNA similar to WP:CE25486 Y55F3AM.4 ;, mRNA sequence.    44   3e-09  3
AE014819|AE014819.1 Plasmodium falciparum 3D7 chromosome 14 section 4 of 13 of the complete sequence.    42   4e-09  7
AL844509|AL844509.1 Plasmodium falciparum chromosome 13.           48   1e-08  6
AE014839|AE014839.1 Plasmodium falciparum 3D7 chromosome 11 section 4 of 8 of the complete sequence.    42   1e-08  12
dna update 2004. 9.18
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

FJ747649_1(FJ747649|pid:none) Triticum aestivum ATG3 protein (AT...   130   2e-29
AY350711_16(AY350711|pid:none) Sisymbrium irio clone BAC Sio11E1...   126   4e-28
BT052164_1(BT052164|pid:none) Medicago truncatula clone MTYF9_FA...   126   4e-28
(Q0WWQ1) RecName: Full=Autophagy-related protein 3; AltName: Ful...   125   1e-27
EU972874_1(EU972874|pid:none) Zea mays clone 389483 autophagy-re...   124   1e-27
FJ416327_1(FJ416327|pid:none) Bombyx mori autophagy related prot...   124   2e-27
BT057047_1(BT057047|pid:none) Salmo salar clone ssal-sjb-020-072...   115   8e-25
(Q6GQE7) RecName: Full=Autophagy-related protein 3; AltName: Ful...   115   1e-24
(Q0VCL3) RecName: Full=Autophagy-related protein 3;  &BC120110_1...   114   1e-24
(Q9NT62) RecName: Full=Autophagy-related protein 3; AltName: Ful...   114   1e-24
protein update 2009. 3.30
PSORT 

 psg: 0.79  gvh: 0.28  alm: 0.42  top: 0.53  tms: 0.00  mit: 0.32  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 

	 36.0 %: cytoplasmic
	 32.0 %: nuclear
	 16.0 %: mitochondrial
	  8.0 %: plasma membrane
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for CHD239 is cyt
5' end seq. ID CHD239F
5' end seq. 
>CHD239F.Seq
AATTTTTATCACACACACAAAAACATTTTTAGATAATTATTTAGACCACACACATTTTAC
ACGCACGCACAATACGTTAGAATATATAATTATATTAATATACGATAAAAAAACATTATA
CAGCAAACGCAAATTATTGTATCTTTCAAATTAAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 172
3' end seq. ID CHD239Z
3' end seq. 
>CHD239Z.Seq
NNNNNNNNNNGATTTCCAAGATGATAATATAATTGAAGAAGAGGATCCAGCTGTATTATC
AAAAAATAATNAAACAACAACTACTNCAACAGCTAACAACAATAATAATAATAATTCAGA
AAATAAAGTTGAAGATAATGATAATATTTTACGGACTCGGACATATGATATTTCAATCAC
TTATGATAAATATTATCAAACNCCAANAGTTTGGTTATTTGGATATGATGAAAATAGAAA
ACCCCTGAAACCAGAAGAAATCTTTGAAGATATTTCAGAAGATCATGCACATAAAACTGT
CNCAATCGANAGCCNCCCNCATTTAGGNATCTCATTTGCANACATTCATCCATGTANACA
TGCTGCCGTCATGAAAAAATTGGTTGANAGACAATCCGAAAATGGTAA
Length of 3' end seq. 408
Connected seq. ID CHD239P
Connected seq. 
>CHD239P.Seq
AATTTTTATCACACACACAAAAACATTTTTAGATAATTATTTAGACCACACACATTTTAC
ACGCACGCACAATACGTTAGAATATATAATTATATTAATATACGATAAAAAAACATTATA
CAGCAAACGCAAATTATTGTATCTTTCAAATTAAAAAAAAAA----------GATTTCCA
AGATGATAATATAATTGAAGAAGAGGATCCAGCTGTATTATCAAAAAATAATNAAACAAC
AACTACTNCAACAGCTAACAACAATAATAATAATAATTCAGAAAATAAAGTTGAAGATAA
TGATAATATTTTACGGACTCGGACATATGATATTTCAATCACTTATGATAAATATTATCA
AACNCCAANAGTTTGGTTATTTGGATATGATGAAAATAGAAAACCCCTGAAACCAGAAGA
AATCTTTGAAGATATTTCAGAAGATCATGCACATAAAACTGTCNCAATCGANAGCCNCCC
NCATTTAGGNATCTCATTTGCANACATTCATCCATGTANACATGCTGCCGTCATGAAAAA
ATTGGTTGANAGACAATCCGAAAATGGTAA
Length of connected seq. 560
Full length Seq ID -
Full length Seq. -
Length of full length seq. -