cln3 (cln3)


Basic Information

Item Value
gene id cln3
gene name cln3
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047607.1
NCBI id CM018553.1
chromosome length 26458119
location 6138100 ~ 6147618 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026917045.2
tgtgtgtacgaGCTGTTAGCCAATCAAAGCGCAGGAGGCGGGCATTGTCAGAAAGTCGGGTTAGCAAAACACGAACCGCTGATGCATCTCAAACTGGAACATTTTGAGGTCATGAAACGGGAACAAAGAAGCTTATTTTCGTTATTGGTTCtctgaaaacacaaaactgtGTTTTATCTAATCTAAACCCAGTGGTATGTTCTGGTTGATGCATTAGTGAAGAAGACGTTTGTCTTTGCCGATTGTCTTCACCATGGATCAAAGAGACAGTGTTAATGCTGACTCTGATAGATCCACTGGCTCTGAAGCTCGCTGTCAGCGATGGAGGAATCAAAGCGGGTTTTGGTTGCTTGGTCTGTGTAATAACTTTGCCTACGTGGTGATGCTGAGTGCCGCtcatgacattttaaaacaacaggAGTCTCATAACGCAACAGTGCCGTCTACAGACCTCCTACACTCACACAGCGGAAACAGCAGCAACAGTAGCCGCTACGACTGCAACCCCGTGTCTACTGCAGCTGTTCTTCTGGCTGACATCTTACCCACTCTAGTGATCAAATTGACAGCGCCGTTTGTCATACACAAAATGCCTTATGGTTTCCGTATTCTGGTGTGTGTCGCCACGGCAACGACCAGCTTCTTAGTGGTGTCATTTTCTTCAACTGTGTGGATGAGCATATTAGgtgtgatcTTTGCCAGTGTGAGTTCAGGACTGGGCGAGctctccttcctctccctcACGGTCTATTTCAGCAGTGATGTGCTGAGCGGATGGGGATCAGGTACAGGAGGAGCAGGAGTGGCCGGCGCTTTCCTTTACTCTGCTTTTACACAGGCTGGGCTTTCACCCCGAGTTACGCTGTTGATCATGCTGGTCATCCCTGCTGTTATGCTGATCAGTTACTTCCTCCTTCTAGtcttccctccctccttcccacAGTGGAAGTCTGGGTCTGGTTTGCTCTCTGGGGAAGACTTTCAGGAACGGCGGCCCTTAATAGTGGATGATAACGATGAAGATTTTGTTCAAGATGAGAAAGGGAGAGAGGACCGATGCACCAGACCCCTGACCTTCTCAGACAAACTACATATCctgaaaGGTCTGCTAAAGTTTACTGTGCCTCTATGCGTGGTCTACTTTGCTGAATATTTCATTAACCAGGGATTGtTGGAGTTGCTCTACTTCCCTGCTTCCAGTTTGTCTCACGCAGAACAGTATCGTTGGTATCAGACTCTGTACCAGATTGGTGTGTTCATATCCCGCACTTCGCTCTACTGCATTAAGATCAGGAGAGTCTGGGTGCTTTCTGTGTTGCAGTGTGTGAACGCAGTCGTGCTGCTTATTTCAGTGTATTGCCAGTTCTGGCCATATGTTTGGGTCGTGTTTTTAATAGTTCTGTATGAAGGTTTGCTGGGAGGAGCCGCCTACGTTAACATCTTCTACTTAATCAGAGTTGAgACTGGGGACCGTGAGAGGGAATTTGCGATGGCTGCAGCGAGTGTGGGAGACAGTATAGGCATTGCTCTCTCTGCAGCACCAGCCATTCCAATACACAACTACTTCTGCTCTCTGTGAGGGAgaccacagacagacagacagaaagacagaggtCTTAGTGTACTTTATGCAGACACAACGTTAAGCTGGCCTCCACAAACATTATCACTTATTACAGAGCACAGAGGCTTTGTTCACCATGTTGTGCACACTGGAGAACTCTGAGAAAGAACACACTATGTGACCAAGACTGTGGTTGGTCTGTACAAATGAGCCATGCTCAAGATGATTCATTCCAAGATGGATGACTTTGAGGAACAAACCAACAAACCGCAGTGGGTGTGTGAGCTCGTAAGCTCGCAAAGGTGTTTCCATCTCCACATTAAGCATGCCGAGGCCTTTAAGTTGGTGGTATATTTCAAACCATGgaagaagcaaaagaaaaagaactttTCTCtgtctacttaaaaaaaaaaaaaaaaaaa

Function

symbol description
cln3 Acts upstream of or within axonogenesis; lysosome organization; and negative regulation of neuron apoptotic process. Predicted to be located in lysosomal membrane. Predicted to be integral component of membrane. Predicted to be active in lysosome. Is expressed in brain; central nervous system; cerebellum; and midbrain hindbrain boundary. Used to study neuronal ceroid lipofuscinosis 3. Human ortholog(s) of this gene implicated in neuronal ceroid lipofuscinosis 3. Orthologous to human CLN3 (CLN3 lysosomal/endosomal transmembrane protein, battenin).

NR:

description
battenin-like isoform X2

GO: NA

KEGG:

id description
K12389 BTS, CLN3; battenin

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026917045.2 True 1986 mRNA 0.47 15 6138100 6147618

Neighbor

gene id symbol gene type direction distance location
zgc:100868 NA coding upstream 9289 6119493 ~ 6128811 (+)
LOC113528511 NA coding upstream 112261 6024296 ~ 6025839 (+)
kcnj19a si:dkey-106c17.3,LOC108274233,LOC108432058,LOC107581800,LOC107654469,LOC107737881,LOC107674737 coding upstream 313900 5788721 ~ 5824200 (+)
asic2 asic2,LOC108411330,LOC107654528,LOC107674665,LOC107720021,LOC107737939 coding upstream 511120 5108421 ~ 5626980 (+)
hrob LOC108259294 coding upstream 1034226 5096322 ~ 5103874 (+)
gdpd3a LOC108256211,LOC103040887,LOC108411042 coding downstream 33181 6180799 ~ 6188261 (+)
LOC113527922 si:ch211-11k18.4,ehd3,LOC108260452,LOC108411040,LOC103375184 coding downstream 50022 6197640 ~ 6204209 (+)
LOC113528207 NA coding downstream 57922 6205540 ~ 6212540 (+)
rabep2 rabep2 coding downstream 67668 6215286 ~ 6222046 (+)
hsd17b1 hsd17b1 coding downstream 116581 6264199 ~ 6267998 (+)
G206339 plcd3,plcd3a,LOC108432051,LOC107674588,LOC107581738 non-coding upstream 146028 5990607 ~ 5992072 (+)
G206291 NA non-coding upstream 174019 5937248 ~ 5964081 (+)
G206301 LOC108257121 non-coding upstream 193668 5940879 ~ 5944432 (+)
G206289 NA non-coding upstream 212915 5918445 ~ 5925185 (+)
LOC117599005 NA non-coding upstream 268294 5868862 ~ 5869806 (+)
G206540 NA non-coding downstream 336061 6483679 ~ 6509229 (+)
G206722 hcrt non-coding downstream 403273 6550891 ~ 6551152 (+)
G206801 NA non-coding downstream 541838 6689456 ~ 6737847 (+)
G206835 ptrf non-coding downstream 583067 6730685 ~ 6810353 (+)
G206942 NA non-coding downstream 751224 6898842 ~ 6931386 (+)
si:ch211-198p11.6 LOC108276725 other upstream 3528 6130780 ~ 6134572 (+)
tmem98 tmem98,LOC107674611,LOC107738157,LOC107654470,LOC107720031 other upstream 239900 5889552 ~ 5898200 (+)
G206166 NA other upstream 477252 5657612 ~ 5660848 (+)
gosr2 gosr2,LOC107654523,LOC102776032,LOC106601130 other upstream 1123584 5003548 ~ 5014516 (+)
psmc3ip psmc3ip other upstream 1416632 4712873 ~ 4721468 (+)
mapk3 mapk3,LOC108256206,LOC108411041,LOC107567791,LOC107690275,LOC107686994 other downstream 12716 6160334 ~ 6175366 (+)
ypel3 ypel3,ypela,LOC108259066,LOC103040367,LOC108411043,LOC103393221,LOC105012807,LOC107686999,LOC107590566,LOC106600728 other downstream 32478 6180096 ~ 6194964 (+)
LOC117598831 LOC106607284,LOC108262339,LOC108259095,LOC108259092,LOC108441610 other downstream 104726 6252344 ~ 6260857 (+)
eftud2 eftud2,LOC107690313,LOC107731090,LOC107653466 other downstream 936823 7084441 ~ 7102215 (+)
LOC113528597 gjc1,LOC108412533,LOC107754260,LOC107731105,LOC107567456,LOC107653474,LOC107570945,LOC107690314 other downstream 960560 7108178 ~ 7131967 (+)

Expression


Co-expression Network