CHR539
Library CH
(Link to library)
Clone ID CHR539
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16339-1
Original site URL
Representative seq. ID CHR539P
(Link to Original site)
Representative DNA sequence
>CHR539 (CHR539Q) /CSM/CH/CHR5-B/CHR539Q.Seq.d/
ATTTATTCAATAAATTTAAATTTGATATGATAATTAGTTAATCGTAATATTATAATATTT
ACATATAAAAGAAAAAAAGAAAAAAATTAATTAAAATAATTGAAAAATAAAAAAAATGTC
ATTTAACATACCCACAATTCATACAAATAACTCCAAAAACGATAATAATGATGAAAATAA
TAATAATAATCAACACACAGAAAATCCATACATTTCAATAAATAATAAAATCACCCCAGA
AAATAGTATCTCATCAAATCTTAATCAAATCGAGAAAGCTGTTAAAGTTGCCAATTCTCA
AAACCTTGATTTAGCATTGATTGGTAATTGCTCATTTGGTGCTCTTATTGATAAGAAATC
ATGCATCAAATGGTGTTGCATTCCAAGATTTGATGCAGATCCAATATTTTGCTCATTAGT
TAGAAAATCAAATGATTCAGGTTTTTATGATGTTGTGGTTGAAAACTTTGCATTCAGTGA
GCAGGTATATATAAAAAACACAGCGGTTTTATCAACAAAACTGTACAACACTAATGGAXX
XXXXXXXXAATGATGTTTATGGTCAATTAATTTTAGCATCTATTCAAATGTTTTTTGATC
AAAGATTAAATAAACCAGGTGATATTCATTTATTCCATAAATTAGAAGGTTTAGGTATGC
AAGCATATACAAATTATAATAAACCAGATTGTGGTCCATTAGGTAAAGGTTCAATTGAAG
ATGGTAAAATTTATACATTTTCATCATTTATGTGTTGGACAGGTTGTGATAGATTAGCAA
AGATTGCAAAGAGTTTAAAGATTCCATTACGTGCACATTTCTGGCAAGAATCTGCAAATA
AAATCAAGGAAGAAATGATGGAACGTTGCTTCAACAAGGAAAAGAATTCATTTGTATCAA
CTTGGGATGGAGATGATGTTGATCCTTACCTTTTATTGATTGCAGAATCTGGATTCACTA
AAATTGATGATCCAAAATTCATTGGAACCGTTGAATATTTAGAGAAAAAACTTAGAAGAG
GCAAATACATTATTCAATCACCAGACAGTGTTAGTGCATCAACTACATTCACTCTCTACT
ATATTTCTTGTATTGCTAAAATGGGTAGAAAAGAAGAAGCAAGAGAACTTTTTGAAAATA
TCCTTAATGANTGCACTCCANTGGGTTTAATTAGTCACGACTGTTA
sequence update 2002.10.25
Translated Amino Acid sequence
fiq*i*i*ydn*livil*ylhikekkkkin*nn*KIKKMSFNIPTIHTNNSKNDNNDENN
NNNQHTENPYISINNKITPENSISSNLNQIEKAVKVANSQNLDLALIGNCSFGALIDKKS
CIKWCCIPRFDADPIFCSLVRKSNDSGFYDVVVENFAFSEQVYIKNTAVLSTKLYNTNG-
--

---NDVYGQLILASIQMFFDQRLNKPGDIHLFHKLEGLGMQAYTNYNKPDCGPLGKGSIE
DGKIYTFSSFMCWTGCDRLAKIAKSLKIPLRAHFWQESANKIKEEMMERCFNKEKNSFVS
TWDGDDVDPYLLLIAESGFTKIDDPKFIGTVEYLEKKLRRGKYIIQSPDSVSASTTFTLY
YISCIAKMGRKEEARELFENILNXCTPXGLISHDC


Translated Amino Acid sequence (All Frames)
Frame A:
iysinlnli**lvnrniiiftykrkkekn*lk*lknkknvi*hthnsyk*lqkr****k*
***sthrksihfnk**nhprk*yliks*snresc*scqfskp*fsidw*lliwcsy**ei
mhqmvlhski*crsnillis*kik*frfl*ccg*klciq*agiykkhsgfinktvqh*w-
--

---NDVYGQLILASIQMFFDQRLNKPGDIHLFHKLEGLGMQAYTNYNKPDCGPLGKGSIE
DGKIYTFSSFMCWTGCDRLAKIAKSLKIPLRAHFWQESANKIKEEMMERCFNKEKNSFVS
TWDGDDVDPYLLLIAESGFTKIDDPKFIGTVEYLEKKLRRGKYIIQSPDSVSASTTFTLY
YISCIAKMGRKEEARELFENILNXCTPXGLISHDC

Frame B:
fiq*i*i*ydn*livil*ylhikekkkkin*nn*KIKKMSFNIPTIHTNNSKNDNNDENN
NNNQHTENPYISINNKITPENSISSNLNQIEKAVKVANSQNLDLALIGNCSFGALIDKKS
CIKWCCIPRFDADPIFCSLVRKSNDSGFYDVVVENFAFSEQVYIKNTAVLSTKLYNTNG-
--

---mmfmvn*f*hlfkcflikd*inqvifiysin*kv*vckhiqiiinqivvh*vkvqlk
mvkfihfhhlcvgqvvid*qrlqrv*rfhyvhisgknlqiksrkk*wnvastrkrihlyq
lgmemmliltfy*lqnldslklmiqnsleplni*rknleeantlfnhqtvlvhqlhslst
iflvllkwvekkkqenflkislmxalxwv*lvttv

Frame C:
lfnkfkfdmiis*s*yyniyi*kkkrkklikiiek*kkchltypqfiqitpktiimmkii
iiintqkihtfq*iikspqkivshqiliksrkllklpilktli*h*lviahlvlllirnh
asngvafqdlmqiqyfah*lenqmiqvfmmlwlktlhsvsryi*ktqrfyqqncttlm--
-

---*clwsinfsiysnvf*skik*tr*ysfip*irrfryasiykl**trlwsir*rfn*r
w*nlyifiiyvldrl**iskdckefkdsitctflarick*nqgrndgtllqqgkeficin
lgwr*c*slpfidcriwih*n**skihwnr*ifrekt*krqihysitrqc*cinyihsll
yflyc*ng*krrskrtf*kyp**xhsxgfn*srll

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

CHR539 (CHR539Q) /CSM/CH/CHR5-B/CHR539Q.Seq.d/ 2050 0.0
CHL211 (CHL211Q) /CSM/CH/CHL2-A/CHL211Q.Seq.d/ 1251 0.0
SFK608 (SFK608Q) /CSM/SF/SFK6-A/SFK608Q.Seq.d/ 1235 0.0
SFE512 (SFE512Q) /CSM/SF/SFE5-A/SFE512Q.Seq.d/ 1235 0.0
CHM569 (CHM569Q) /CSM/CH/CHM5-C/CHM569Q.Seq.d/ 1235 0.0
CHM133 (CHM133Q) /CSM/CH/CHM1-B/CHM133Q.Seq.d/ 1235 0.0
CHB367 (CHB367Q) /CSM/CH/CHB3-C/CHB367Q.Seq.d/ 1235 0.0
CFK455 (CFK455Q) /CSM/CF/CFK4-C/CFK455Q.Seq.d/ 1235 0.0
CFJ567 (CFJ567Q) /CSM/CF/CFJ5-C/CFJ567Q.Seq.d/ 1235 0.0
CFJ243 (CFJ243Q) /CSM/CF/CFJ2-B/CFJ243Q.Seq.d/ 1235 0.0

own update 2004.12.25
Homology vs DNA

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

AC116979|AC116979.3 Dictyostelium discoideum chromosome 2 map 6445720-6776760 strain AX4, complete sequence. 1076 0.0 1
AL844509|AL844509.1 Plasmodium falciparum chromosome 13. 56 1e-05 4
CR382400|CR382400.1 Plasmodium falciparum chromosome 6, complete sequence; segment 3/5. 48 6e-05 2
AL935300|AL935300.10 Zebrafish DNA sequence from clone CH211-241E1. 50 9e-05 2
AL034556|AL034556.4 Plasmodium falciparum MAL3P5. 50 1e-04 7
AL976955|AL976955.1 Danio rerio genomic clone DKEY-26K22, genomic survey sequence. 50 1e-04 2
CB932905|CB932905.1 rj08e12.y1 Meloidogyne chitwoodi egg pAMP1 v1 Meloidogyne chitwoodi cDNA 5', mRNA sequence. 58 4e-04 1
AC168822|AC168822.2 Strongylocentrotus purpuratus clone R3-13E4, WORKING DRAFT SEQUENCE, 49 unordered pieces. 58 4e-04 1
AC168816|AC168816.2 Strongylocentrotus purpuratus clone R3-13G12, WORKING DRAFT SEQUENCE, 34 unordered pieces. 58 4e-04 1
AZ214812|AZ214812.1 Sheared DNA-120D7.TF Sheared DNA Trypanosoma brucei genomic clone Sheared DNA-120D7, genomic survey sequence. 58 4e-04 1
dna update 2005.11.18
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

AC116979_62(AC116979|pid:none) Dictyostelium discoideum chromoso... 431 e-119
AE013598_1578(AE013598|pid:none) Xanthomonas oryzae pv. oryzae K... 167 5e-40
AM039952_3335(AM039952|pid:none) Xanthomonas campestris pv. vesi... 162 2e-38
AE008923_3162(AE008923|pid:none) Xanthomonas axonopodis pv. citr... 161 3e-38
CP000544_1102(CP000544|pid:none) Halorhodospira halophila SL1, c... 159 2e-37
AM920689_1132(AM920689|pid:none) Xanthomonas campestris pv. camp... 158 4e-37
CP000285_234(CP000285|pid:none) Chromohalobacter salexigens DSM ... 153 9e-36
CP000453_6(CP000453|pid:none) Alkalilimnicola ehrlichei MLHE-1, ... 153 1e-35
CP000390_1519(CP000390|pid:none) Mesorhizobium sp. BNC1, complet... 150 1e-34
CP000316_3844(CP000316|pid:none) Polaromonas sp. JS666, complete... 150 1e-34
protein update 2009. 4.12
PSORT

psg: 0.86 gvh: 0.27 alm: 0.44 top: 0.17 tms: 0.00 mit: 0.35 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

40.0 %: cytoplasmic
40.0 %: nuclear
8.0 %: vacuolar
4.0 %: mitochondrial
4.0 %: vesicles of secretory system
4.0 %: endoplasmic reticulum

>> prediction for CHR539 is cyt

5' end seq. ID CHR539F
5' end seq.
>CHR539F.Seq
ATTTATTCAATAAATTTAAATTTGATATGATAATTAGTTAATCGTAATATTATAATATTT
ACATATAAAAGAAAAAAAGAAAAAAATTAATTAAAATAATTGAAAAATAAAAAAAATGTC
ATTTAACATACCCACAATTCATACAAATAACTCCAAAAACGATAATAATGATGAAAATAA
TAATAATAATCAACACACAGAAAATCCATACATTTCAATAAATAATAAAATCACCCCAGA
AAATAGTATCTCATCAAATCTTAATCAAATCGAGAAAGCTGTTAAAGTTGCCAATTCTCA
AAACCTTGATTTAGCATTGATTGGTAATTGCTCATTTGGTGCTCTTATTGATAAGAAATC
ATGCATCAAATGGTGTTGCATTCCAAGATTTGATGCAGATCCAATATTTTGCTCATTAGT
TAGAAAATCAAATGATTCAGGTTTTTATGATGTTGTGGTTGAAAACTTTGCATTCAGTGA
GCAGGTATATATAAAAAACACAGCGGTTTTATCAACAAAACTGTACAACACTAATGGANN
NNNNNNNN
Length of 5' end seq. 548
3' end seq. ID CHR539Z
3' end seq.
>CHR539Z.Seq
NNNNNNNNNNAATGATGTTTATGGTCAATTAATTTTAGCATCTATTCAAATGTTTTTTGA
TCAAAGATTAAATAAACCAGGTGATATTCATTTATTCCATAAATTAGAAGGTTTAGGTAT
GCAAGCATATACAAATTATAATAAACCAGATTGTGGTCCATTAGGTAAAGGTTCAATTGA
AGATGGTAAAATTTATACATTTTCATCATTTATGTGTTGGACAGGTTGTGATAGATTAGC
AAAGATTGCAAAGAGTTTAAAGATTCCATTACGTGCACATTTCTGGCAAGAATCTGCAAA
TAAAATCAAGGAAGAAATGATGGAACGTTGCTTCAACAAGGAAAAGAATTCATTTGTATC
AACTTGGGATGGAGATGATGTTGATCCTTACCTTTTATTGATTGCAGAATCTGGATTCAC
TAAAATTGATGATCCAAAATTCATTGGAACCGTTGAATATTTAGAGAAAAAACTTAGAAG
AGGCAAATACATTATTCAATCACCAGACAGTGTTAGTGCATCAACTACATTCACTCTCTA
CTATATTTCTTGTATTGCTAAAATGGGTAGAAAAGAAGAAGCAAGAGAACTTTTTGAAAA
TATCCTTAATGANTGCACTCCANTGGGTTTAATTAGTCACGACTGTTA
Length of 3' end seq. 648
Connected seq. ID CHR539P
Connected seq.
>CHR539P.Seq
ATTTATTCAATAAATTTAAATTTGATATGATAATTAGTTAATCGTAATATTATAATATTT
ACATATAAAAGAAAAAAAGAAAAAAATTAATTAAAATAATTGAAAAATAAAAAAAATGTC
ATTTAACATACCCACAATTCATACAAATAACTCCAAAAACGATAATAATGATGAAAATAA
TAATAATAATCAACACACAGAAAATCCATACATTTCAATAAATAATAAAATCACCCCAGA
AAATAGTATCTCATCAAATCTTAATCAAATCGAGAAAGCTGTTAAAGTTGCCAATTCTCA
AAACCTTGATTTAGCATTGATTGGTAATTGCTCATTTGGTGCTCTTATTGATAAGAAATC
ATGCATCAAATGGTGTTGCATTCCAAGATTTGATGCAGATCCAATATTTTGCTCATTAGT
TAGAAAATCAAATGATTCAGGTTTTTATGATGTTGTGGTTGAAAACTTTGCATTCAGTGA
GCAGGTATATATAAAAAACACAGCGGTTTTATCAACAAAACTGTACAACACTAATGGA--
--------AATGATGTTTATGGTCAATTAATTTTAGCATCTATTCAAATGTTTTTTGATC
AAAGATTAAATAAACCAGGTGATATTCATTTATTCCATAAATTAGAAGGTTTAGGTATGC
AAGCATATACAAATTATAATAAACCAGATTGTGGTCCATTAGGTAAAGGTTCAATTGAAG
ATGGTAAAATTTATACATTTTCATCATTTATGTGTTGGACAGGTTGTGATAGATTAGCAA
AGATTGCAAAGAGTTTAAAGATTCCATTACGTGCACATTTCTGGCAAGAATCTGCAAATA
AAATCAAGGAAGAAATGATGGAACGTTGCTTCAACAAGGAAAAGAATTCATTTGTATCAA
CTTGGGATGGAGATGATGTTGATCCTTACCTTTTATTGATTGCAGAATCTGGATTCACTA
AAATTGATGATCCAAAATTCATTGGAACCGTTGAATATTTAGAGAAAAAACTTAGAAGAG
GCAAATACATTATTCAATCACCAGACAGTGTTAGTGCATCAACTACATTCACTCTCTACT
ATATTTCTTGTATTGCTAAAATGGGTAGAAAAGAAGAAGCAAGAGAACTTTTTGAAAATA
TCCTTAATGANTGCACTCCANTGGGTTTAATTAGTCACGACTGTTA
Length of connected seq. 1176
Full length Seq ID -
Full length Seq. -
Length of full length seq. -