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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
CHN555
Library CH
(Link to library)
Clone ID CHN555
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U12098-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence 
>CHN555 (CHN555Q) /CSM/CH/CHN5-C/CHN555Q.Seq.d/
XXXXXXXXXXCTTGTGCAATTTGTATGTTGGGTAACCTTTATGCAAGATTATCAGGAACT
TCTGCTGCAGTTCCAATTATGAGTGGTATCATTTTATTAGTTCCTGGTAGTATGGGTGTA
AAAGGTTTAGTTAGTGTATCATCTGGTGATATATCAGGTGGTATTGTTTTCTTTGAAGGA
ATGTTTATGATTGCTGCATCTTTAACAATTGGTTTATTAGTTGCAAATTTAATTGTTAAA
CCAAATAAAGCATTATAAATAAAAGTAATAATAGTAATAATAGTAATAATAATAATAA
sequence update 2002. 9.10
Translated Amino Acid sequence 
---CAICMLGNLYARLSGTSAAVPIMSGIILLVPGSMGVKGLVSVSSGDISGGIVFFEGM
FMIAASLTIGLLVANLIVKPNKAL*ikviiviiviiii
Translated Amino Acid sequence (All Frames) 
Frame A:
---lcnlyvg*plckiirnfccssnyewyhfissw*ygckrfs*ciiw*yirwycfl*rn
vydccifnnwfisckfnc*tk*siinksnnsnnsnnnn


Frame B:
---CAICMLGNLYARLSGTSAAVPIMSGIILLVPGSMGVKGLVSVSSGDISGGIVFFEGM
FMIAASLTIGLLVANLIVKPNKAL*ikviiviiviiii


Frame C:
---vqfvcwvtfmqdyqelllqfql*vvsfy*flvvwv*kv*lvyhlviyqvvlfslkec
l*llhl*qlvy*lqi*llnqikhyk*k***********
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHH439 (SHH439Q) /CSM/SH/SHH4-B/SHH439Q.Seq.d/                        424   e-118
CHN555 (CHN555Q) /CSM/CH/CHN5-C/CHN555Q.Seq.d/                        424   e-118
VHN679 (VHN679Q) /CSM/VH/VHN6-D/VHN679Q.Seq.d/                         58   8e-08
SLF291 (SLF291Q) /CSM/SL/SLF2-D/SLF291Q.Seq.d/                         58   8e-08
SLC382 (SLC382Q) /CSM/SL/SLC3-D/SLC382Q.Seq.d/                         58   8e-08
SLB778 (SLB778Q) /CSM/SL/SLB7-D/SLB778Q.Seq.d/                         58   8e-08
SLA296 (SLA296Q) /CSM/SL/SLA2-D/SLA296Q.Seq.d/                         58   8e-08
SHK748 (SHK748Q) /CSM/SH/SHK7-B/SHK748Q.Seq.d/                         58   8e-08
SHJ621 (SHJ621Q) /CSM/SH/SHJ6-A/SHJ621Q.Seq.d/                         58   8e-08
SHH206 (SHH206Q) /CSM/SH/SHH2-A/SHH206Q.Seq.d/                         58   8e-08
own update 2004.12.25
Homology vs DNA 

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

AC009055|AC009055.10 Homo sapiens chromosome 16 clone RP11-256I9, complete sequence.    44   1.2    3
AC162430|AC162430.1 Papio hamadryas clone RP41-113L13, WORKING DRAFT SEQUENCE.    44   1.5    1
AC140973|AC140973.1 Papio hamadryas clone RP41-171E5, WORKING DRAFT SEQUENCE, 1 unordered piece.    44   1.5    1
BG415293|BG415293.1 HVSMEk0005O06f Hordeum vulgare testa/pericarp EST library HVcDNA0013 (normal) Hordeum vulgare cDNA clone HVSMEk0005O06f, mRNA sequence.    44   1.5    1
AC157593|AC157593.3 Mus musculus chromosome 16 clone RP23-254B18, WORKING DRAFT SEQUENCE, 3 unordered pieces.    44   1.5    1
BM417876|BM417876.1 952005H10.x9 952 - BMS tissue from Walbot Lab (reduced rRNA) Zea mays cDNA, mRNA sequence.    44   1.5    1
CD052329|CD052329.1 EST1588 Zea mays sperm cell cDNA library Zea mays cDNA clone Zmsp5033 5', mRNA sequence.    44   1.5    1
AC160975|AC160975.1 Mus musculus chromosome Y clone RP24-84F20, WORKING DRAFT SEQUENCE, 20 unordered pieces.    36   2.3    2
AC160968|AC160968.1 Mus musculus chromosome Y clone RP24-418C24, WORKING DRAFT SEQUENCE, 29 unordered pieces.    36   2.3    2
AY591323|AY591323.1 Steinernema carpocapsae mitochondrion, complete genome.    36   2.4    3
dna update 2005. 7.12
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AE014299_306(AE014299|pid:none) Shewanella oneidensis MR-1, comp...    42   0.005
CP000444_272(CP000444|pid:none) Shewanella sp. MR-7, complete ge...    42   0.005
CP000606_230(CP000606|pid:none) Shewanella loihica PV-4, complet...    41   0.014
CP000821_4211(CP000821|pid:none) Shewanella sediminis HAW-EB3, c...    40   0.024
CP000563_4021(CP000563|pid:none) Shewanella baltica OS155, compl...    40   0.024
CP000503_3778(CP000503|pid:none) Shewanella sp. W3-18-1, complet...    39   0.041
CP000507_3341(CP000507|pid:none) Shewanella amazonensis SB2B, co...    39   0.041
CP000931_3992(CP000931|pid:none) Shewanella halifaxensis HAW-EB4...    38   0.092
CP000472_2031(CP000472|pid:none) Shewanella piezotolerans WP3, c...    38   0.092
CP000388_1423(CP000388|pid:none) Pseudoalteromonas atlantica T6c...    37   0.16
protein update 2009. 1. 3
PSORT 

 psg: 0.88  gvh: 0.60  alm: 0.24  top: 0.40  tms: 0.13  mit: 0.25  mip: 0.03
 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: 1.00  m3b: 0.00  m_ : 0.00 

	 36.0 %: endoplasmic reticulum
	 24.0 %: mitochondrial
	 12.0 %: plasma membrane
	  8.0 %: extracellular, including cell wall
	  4.0 %: Golgi
	  4.0 %: nuclear
	  4.0 %: cytoplasmic
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for CHN555 is end
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID CHN555Z
3' end seq. 
>CHN555Z.Seq
NNNNNNNNNNCTTGTGCAATTTGTATGTTGGGTAACCTTTATGCAAGATTATCAGGAACT
TCTGCTGCAGTTCCAATTATGAGTGGTATCATTTTATTAGTTCCTGGTAGTATGGGTGTA
AAAGGTTTAGTTAGTGTATCATCTGGTGATATATCAGGTGGTATTGTTTTCTTTGAAGGA
ATGTTTATGATTGCTGCATCTTTAACAATTGGTTTATTAGTTGCAAATTTAATTGTTAAA
CCAAATAAAGCATTATAAATAAAAGTAATAATAGTAATAATAGTAATAATAATAATAA
Length of 3' end seq. 298
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -