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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
CHC406
Library CH
(Link to library)
Clone ID CHC406
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15891-1
Original site URL
Representative seq. ID CHC406P
(Link to Original site)
Representative DNA sequence 
>CHC406 (CHC406Q) /CSM/CH/CHC4-A/CHC406Q.Seq.d/
TGGCCTACTGGAAAAAAAACAAATATATAAAAATCTATTATTTAAGATGTCAAAAAATGG
AGCAGCAGATGCTTTAAAAACTTTTGAACTTGAAAATAACATTCAAACCATAGATCATGA
TCAATTATTTAAATATGATCCTCAACAATATCAACAATTTTTACAATCAAAACCATGGTC
AAAAGATCCTCATTATTTTAAACATGTTAAAATATCAGCAATTGCATTATTAAAGATGGT
TATGCATGCTAGATCTGGTGGTAAATTAGAAGTTATGGGTATGTTAATGGGTAAAGTTGA
AAATAATACAATGATCATTATGGATTCATTTGCATTACCAGTTGAAGGTACAGAGACAAG
AGTAAACGCACAAGTTGAAGCTTATGAATACATGGTTGAATATCTTGAATTAATTAAACA
AACTGGTAGACTTGAAAATGCTTTAGGTTGGTATCACAGTCATCCAGGTTATGGTTGTTG
GTTATCTGGTATTGATGTTGGTACTCAATCTGTAAATCAACAATATTCTGAACCATGGTT
AGGTATTGTTATTGATCCAACACGTACAGTTTCAGCAGGTAAAGTTGAAATTGGTGCATT
TAGXXXXXXXXXXTATCCCCAAGGTTATAAACCCCCTAANGAAGGNCCNTCANAANATCN
ATCNATTCCNTTATCAAANATTNAANATTTTGGNGNACNTTGCNAACAANATTACTNTTT
AAANATTACCTATTTCAAATCATNTTTANATCNACAATTACNCGANAAACTTTGGAACAA
ANATTGGGNTAAAACTCTTTTTTCATCCCCNATTTTCAGGAATNGNGATTANATTACAGG
GCNAATTAATGATNTTANCGAAAAATTANAACNAGCTGAAACNCAACNCAGCCNTTCAAG
ATCNAGNATTTTAGATAAAAANAAANAANAAAGNTTNCNTTCNAAAGTTAGNAAANANAG
NTCNAGGGNCCCNANANAACNAGGTCNAGGGATCATGNNNCNAGGATTTAAAAACNCTAT
TTTCNACGAANGGCNAACCCCCCAAC
sequence update 2002.10.25
Translated Amino Acid sequence 
GLLEKKQIYKNLLFKMSKNGAADALKTFELENNIQTIDHDQLFKYDPQQYQQFLQSKPWS
KDPHYFKHVKISAIALLKMVMHARSGGKLEVMGMLMGKVENNTMIIMDSFALPVEGTETR
VNAQVEAYEYMVEYLELIKQTGRLENALGWYHSHPGYGCWLSGIDVGTQSVNQQYSEPWL
GIVIDPTRTVSAGKVEIGAF---

---YPQGYKPPXEGPSXXXSIPLSXIXXFGXXCXQXYXLXITYFKSXLXXQLXXKLWNKX
WXKTLFSSPIFRNXDXITGXINDXXEKLXXAETQXSXSRSXILDKXKXXXXXSKVXKXXS
RXPXXXGXGIMXXGFKNXIFXEXXTPQ
Translated Amino Acid sequence (All Frames) 
Frame A:
wptgkktni*ksii*dvkkwssrcfknf*t*k*hsnhrs*sii*i*sstistiftiktmv
krsslf*tc*nisnciikdgyac*iww*irsygyvng*s*k*yndhygficits*ryrdk
skrts*sl*ihg*is*in*tnw*t*kcfrlvsqssrlwllviwy*cwysickstif*tmv
rycy*sntysfsr*s*nwci*---

---YPQGYKPPXEGPSXXXSIPLSXIXXFGXXCXQXYXLXITYFKSXLXXQLXXKLWNKX
WXKTLFSSPIFRNXDXITGXINDXXEKLXXAETQXSXSRSXILDKXKXXXXXSKVXKXXS
RXPXXXGXGIMXXGFKNXIFXEXXTPQ

Frame B:
GLLEKKQIYKNLLFKMSKNGAADALKTFELENNIQTIDHDQLFKYDPQQYQQFLQSKPWS
KDPHYFKHVKISAIALLKMVMHARSGGKLEVMGMLMGKVENNTMIIMDSFALPVEGTETR
VNAQVEAYEYMVEYLELIKQTGRLENALGWYHSHPGYGCWLSGIDVGTQSVNQQYSEPWL
GIVIDPTRTVSAGKVEIGAF---

---ipkvinplxkxxxxixxfxyqxxxilxxxanxitx*xlpisnhxxixnyxxnfgtxi
gxklffhpxfsgxxixlqgxlmxlxknxnxlkxnxaxqdxxf*ikxxxkxxxxklxxxxx
gxxxnxvxgsxxxdlktlfstxgxppn

Frame C:
aywkknkyikiyylrcqkmeqqml*kllnlkitfkp*iminylnmilnninnfynqnhgq
kiliilnmlkyqqlhy*rwlcmldlvvn*klwvc*wvklkiiq*slwihlhyqlkvqrqe
*thklklmntwlniln*lnklvdlkml*vgitviqvmvvgylvlmlvlnl*innilnhg*
vllliqhvqfqqvklklvhl---

---sprl*tp*xrxxxxsixsxikxxxfwxtlxtxllfkxylfqixfxstitrxtleqxl
g*nsffipxfqexxlxyran**xxrkixts*nxtqpfkixxfr*kxxxkxxfxs*xxxxx
gpxxtrsrdhxxri*kxyfxrxanpp
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHC406 (CHC406Q) /CSM/CH/CHC4-A/CHC406Q.Seq.d/                       1542   0.0
SLB352 (SLB352Q) /CSM/SL/SLB3-C/SLB352Q.Seq.d/                       1368   0.0
SSM659 (SSM659Q) /CSM/SS/SSM6-C/SSM659Q.Seq.d/                       1304   0.0
VFD324 (VFD324Q) /CSM/VF/VFD3-A/VFD324Q.Seq.d/                       1158   0.0
CFG193 (CFG193Q) /CSM/CF/CFG1-D/CFG193Q.Seq.d/                       1007   0.0
VFE186 (VFE186Q) /CSM/VF/VFE1-D/VFE186Q.Seq.d/                        892   0.0
VFH260 (VFH260Q) /CSM/VF/VFH2-C/VFH260Q.Seq.d/                        333   3e-90
VFC391 (VFC391Q) /CSM/VF/VFC3-D/VFC391Q.Seq.d/                        287   2e-76
SLE535 (SLE535Q) /CSM/SL/SLE5-B/SLE535Q.Seq.d/                        278   2e-73
VSG654 (VSG654Q) /CSM/VS/VSG6-C/VSG654Q.Seq.d/                        268   2e-70
own update 2004.12.25
Homology vs DNA 

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

CV185868|CV185868.1 taj15g12.y1 Hydra EST UCI 5 ALP Hydra magnipapillata cDNA 5' similar to TR:O35864 O35864 38 KDA MOV34 ISOLOGUE. ;, mRNA sequence.    82   6e-30  3
BI514237|BI514237.1 BB160014B20A07.5 Bee Brain Normalized Library, BB16 Apis mellifera cDNA clone BB160014B20A07 5', mRNA sequence.    90   3e-28  2
CN587152|CN587152.1 USDA-FP_130224 Acyrthosiphon pisum, Pea Aphid Acyrthosiphon pisum cDNA clone WHAP094_C06, mRNA sequence.    92   5e-20  2
CN762692|CN762692.1 ID0AAA4DF06RM1 ApMS Acyrthosiphon pisum cDNA clone ID0AAA4DF06 5', mRNA sequence.    92   6e-20  2
CN586769|CN586769.1 USDA-FP_129841 Acyrthosiphon pisum, Pea Aphid Acyrthosiphon pisum cDNA clone WHAP089_F03, mRNA sequence.    92   7e-20  2
CK242052|CK242052.1 rx04h09.y1 Meloidogyne paranaensis egg SMART pGEM Meloidogyne paranaensis cDNA 5' similar to TR:O23130 O23130 SIMILAR TO JUN ACTIVATION DOMAIN BINDING PROTEIN. [1] ;, mRNA sequence.    72   1e-17  3
CN583863|CN583863.1 USDA-FP_126928 Acyrthosiphon pisum, Pea Aphid Acyrthosiphon pisum cDNA clone WHAP051_G06, mRNA sequence.    92   2e-14  1
CN750033|CN750033.1 ApDT-IV-D1 ApDT Acyrthosiphon pisum cDNA clone ApDTIVD1 5', mRNA sequence.    92   2e-14  1
BC062499|BC062499.1 Xenopus tropicalis COP9 signalosome subunit 5, mRNA (cDNA clone MGC:76063 IMAGE:5307562), complete cds.    46   8e-14  4
CR760870|CR760870.1 Xenopus tropicalis finished cDNA, clone TTpA010d21.    46   8e-14  4
dna update 2004. 9.17
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BC098736_1(BC098736|pid:none) Rattus norvegicus COP9 (constituti...   360   6e-98
AY894067_1(AY894067|pid:none) Synthetic construct Homo sapiens c...   360   6e-98
(O35864) RecName: Full=COP9 signalosome complex subunit 5;      ...   360   6e-98
(Q6GLM9) RecName: Full=COP9 signalosome complex subunit 5;      ...   359   7e-98
S71820(S71820) JUN-activation-domain-binding protein 1 - human  ...   358   2e-97
EF191987_1(EF191987|pid:none) Taeniopygia guttata clone 0058P004...   357   3e-97
AJ719811_1(AJ719811|pid:none) Gallus gallus mRNA for hypothetica...   357   3e-97
DQ214122_1(DQ214122|pid:none) Taeniopygia guttata clone 0058P002...   355   1e-96
AF129083_1(AF129083|pid:none) Drosophila melanogaster COP9 signa...   354   2e-96
EF085453_1(EF085453|pid:none) Picea sitchensis clone WS02728_B20...   353   4e-96
protein update 2009. 3.29
PSORT 

 psg: 0.66  gvh: 0.39  alm: 0.44  top: 0.53  tms: 0.00  mit: 0.16  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 

	 52.0 %: cytoplasmic
	 32.0 %: nuclear
	 12.0 %: mitochondrial
	  4.0 %: cytoskeletal

>> prediction for CHC406 is cyt
5' end seq. ID CHC406F
5' end seq. 
>CHC406F.Seq
TGGCCTACTGGAAAAAAAACAAATATATAAAAATCTATTATTTAAGATGTCAAAAAATGG
AGCAGCAGATGCTTTAAAAACTTTTGAACTTGAAAATAACATTCAAACCATAGATCATGA
TCAATTATTTAAATATGATCCTCAACAATATCAACAATTTTTACAATCAAAACCATGGTC
AAAAGATCCTCATTATTTTAAACATGTTAAAATATCAGCAATTGCATTATTAAAGATGGT
TATGCATGCTAGATCTGGTGGTAAATTAGAAGTTATGGGTATGTTAATGGGTAAAGTTGA
AAATAATACAATGATCATTATGGATTCATTTGCATTACCAGTTGAAGGTACAGAGACAAG
AGTAAACGCACAAGTTGAAGCTTATGAATACATGGTTGAATATCTTGAATTAATTAAACA
AACTGGTAGACTTGAAAATGCTTTAGGTTGGTATCACAGTCATCCAGGTTATGGTTGTTG
GTTATCTGGTATTGATGTTGGTACTCAATCTGTAAATCAACAATATTCTGAACCATGGTT
AGGTATTGTTATTGATCCAACACGTACAGTTTCAGCAGGTAAAGTTGAAATTGGTGCATT
TAGNNNNNNNNNN
Length of 5' end seq. 613
3' end seq. ID CHC406Z
3' end seq. 
>CHC406Z.Seq
NNNNNNNNNNTATCCCCAAGGTTATAAACCCCCTAANGAAGGNCCNTCANAANATCNATC
NATTCCNTTATCAAANATTNAANATTTTGGNGNACNTTGCNAACAANATTACTNTTTAAA
NATTACCTATTTCAAATCATNTTTANATCNACAATTACNCGANAAACTTTGGAACAAANA
TTGGGNTAAAACTCTTTTTTCATCCCCNATTTTCAGGAATNGNGATTANATTACAGGGCN
AATTAATGATNTTANCGAAAAATTANAACNAGCTGAAACNCAACNCAGCCNTTCAAGATC
NAGNATTTTAGATAAAAANAAANAANAAAGNTTNCNTTCNAAAGTTAGNAAANANAGNTC
NAGGGNCCCNANANAACNAGGTCNAGGGATCATGNNNCNAGGATTTAAAAACNCTATTTT
CNACGAANGGCNAACCCCCCAAC
Length of 3' end seq. 443
Connected seq. ID CHC406P
Connected seq. 
>CHC406P.Seq
TGGCCTACTGGAAAAAAAACAAATATATAAAAATCTATTATTTAAGATGTCAAAAAATGG
AGCAGCAGATGCTTTAAAAACTTTTGAACTTGAAAATAACATTCAAACCATAGATCATGA
TCAATTATTTAAATATGATCCTCAACAATATCAACAATTTTTACAATCAAAACCATGGTC
AAAAGATCCTCATTATTTTAAACATGTTAAAATATCAGCAATTGCATTATTAAAGATGGT
TATGCATGCTAGATCTGGTGGTAAATTAGAAGTTATGGGTATGTTAATGGGTAAAGTTGA
AAATAATACAATGATCATTATGGATTCATTTGCATTACCAGTTGAAGGTACAGAGACAAG
AGTAAACGCACAAGTTGAAGCTTATGAATACATGGTTGAATATCTTGAATTAATTAAACA
AACTGGTAGACTTGAAAATGCTTTAGGTTGGTATCACAGTCATCCAGGTTATGGTTGTTG
GTTATCTGGTATTGATGTTGGTACTCAATCTGTAAATCAACAATATTCTGAACCATGGTT
AGGTATTGTTATTGATCCAACACGTACAGTTTCAGCAGGTAAAGTTGAAATTGGTGCATT
TAG----------TATCCCCAAGGTTATAAACCCCCTAANGAAGGNCCNTCANAANATCN
ATCNATTCCNTTATCAAANATTNAANATTTTGGNGNACNTTGCNAACAANATTACTNTTT
AAANATTACCTATTTCAAATCATNTTTANATCNACAATTACNCGANAAACTTTGGAACAA
ANATTGGGNTAAAACTCTTTTTTCATCCCCNATTTTCAGGAATNGNGATTANATTACAGG
GCNAATTAATGATNTTANCGAAAAATTANAACNAGCTGAAACNCAACNCAGCCNTTCAAG
ATCNAGNATTTTAGATAAAAANAAANAANAAAGNTTNCNTTCNAAAGTTAGNAAANANAG
NTCNAGGGNCCCNANANAACNAGGTCNAGGGATCATGNNNCNAGGATTTAAAAACNCTAT
TTTCNACGAANGGCNAACCCCCCAAC
Length of connected seq. 1036
Full length Seq ID -
Full length Seq. -
Length of full length seq. -