RNA id: XM_034303042.1


Basic Information

Item Value
RNA id XM_034303042.1
length 5424
RNA type mRNA
GC content 0.50
exon number 38
gene id pcdh15a
representative True

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 17132132 ~ 17276658 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

aaggaaagcAGAAGGGAAAAGCAGGACAGATAATACACCGAAGTAAGAAGGACAGGATCAGGACAGCTGGGCCAATTTGTCAGATGAAAAAGACAGgtTGACAGCAGACAGCTGTGAGTGAAGATGAGGAGGGCCTTGTGGCTGGTGAGGTGGTTGGGGATTGGGATTGTCTTGCTCATGCCCCTTCCTTACATCAGGGCTCAGGGAGCAGAAGACTGGCATTATGATGAGTGTAAGTTGTATCGAGCTGGACCCCCTGCCACCATTGTCACCATTGATGAAGAGAGTCCAAATGgtaCAGTTCTGGTGGAGAACATGCAGATCAACGGTCGAGCACAGGACCCGGGTCGGACCATATCTCTTACTTTACTGGGGAACTATGACTACTGGGTTATACTGGACCCTATTCTCCAGAGACTCTACCTCAACAGCACTGGAAGAGTACTGGACCGAGATCCCCCCAGATACATCACCACTATAGTGGTTCAGGTTCAGTGCACTAATCAGCTGGTGGGCACTGTTATTCTGCATGAGGTGCGCATTGTGGTACGCGACAGGAACGACAACATACCGCAGTTCCAGCAGCCACGCTATTACGTGGCAGTCAATGAGCTCACTCCCGTCGGCACCACCATCTTCACTGGTTTCTCAGGAAACAACGGAGCCACTGACATTGATGATGGACCAAACGGCCAAATTGAGTATGGCATCCAGTACAACCCCAATGACCCGgtgtCAAACAGGACTGTTCAGGTGGCTAGCACACTGTCTGGTAACATCGTCCTTGCTGAGAGACTGAACTATGAAGAAAGGACACGCTACCTAATCATAGTCCAGGCCAATGATCGTGCTCCATATCCAGCCAGCCGGCACACAGCTACTACAACACTGACTCTAGATGTATTAGACGGAGATGACCTGGGTCCCATGTTCCTGCCCTGTGTTCTGGTCAATAACACCCGAGACTGCAGCCCTGTCACATACCGTGCCGTCATTCCTGAACTCATAGACCCGAGCAAACTGAATCCCCTAAACGTGTCACCACCAATCCGAGCGGTGGACCAGGACAGGAACATTCAGCCTCCATCAGACAGACCTGGCATTCTCTACTTTATTCTGGTTGGCCAGCCAGCAGTCTACCCAGAGTTCTTTTCTTTGAACAGGACCACAGCAGAGCTCCGCCTTCTAAAGCCAGTTAGGAGGGACATGTATCAAAGCTTCAACCTTGTCATCAAGGCCGAGCAGGATAACGGTCACCCTCTGCCTGCGTTTGCTGATCTGCGGATAGAGGTGTTGGATGAAAACAACCAAGCACCCTACTTCCAGCAGCCATCCTACCAGGGCTTCATCAGCGAATCGGCCCCTGTGGGTGGCACCGTGTCAGGCAGAGCCAACCTCACAGCACCACTGGCCATCATCGCCCTTGATAACGACATAGAGGAGAGTAAAGACCCACAGGTGAAGATAACGCTGAGTGACTACAACACTGTCTTCTCCATCACCCCTACCGGAATCACACGTTACCTTCTGCTGCTCAGACCAGTGGACAGAGAGGCACAGACGAACTACACCTTCACGATGGTGGCCTCTGATGGTGTACAGCAGAGCATGCCTATAAGGGTGAACATCCTGGTTATCGATGCTAACGACAACACACCCACCTTCTCTCAGGTCTCCTACAACATAGAGGTGTTCACTAACATGCAGCCTGGAGAAACTGTAATACTGTTAACTGCTCAGGATGCTGATGAGGGTCTGAATGGTCTGGTGACCTACACCATCTTGGCAGGAGATCAGGGAGATTTTGTCATCAGTAACCGTACAGGTCGAATCACCATAGCTCCGGGAGTGAATCTGAGCGTGGGCCGCTCTTATGCTCTAACTGTCAGGGCAGCTGATAACGCACCTGAGGCTGAGAGGAGgaGTTCCATAACTACGGTTTATATTGAGGTTCTACCTCCTAATAACCAGAGTCCCCCACGCTTTCCATTGACAACCTACAACCTAGAGATCAGTGAAGCCATGAGGATTGGAGCCATCCTTCTCAATCTGCAGgCGATAGACCGTGAGCTAGATCCAATTACATACCGTATTCTGAGTGGTGATCCACAGCAGATGTTCAACCTTTCTCAAACTATAGGCCTACTGATCTTAGCAAAGGCACTGGACAGAGAGACCATTGACCAGTACCGGCTCATCGTGACAGCCACCGATGGACAACCTGGAGGGACGTCCACTGCTACTGTCAATGTTGTGGTCACAGATGTCAATGACAATGACCCAACCTTTGACATCACCTTGCCTAGGAATTTGACTGTACAGGAAGAGAGGGCCAATTTGTCTGTGGGTCAAGTTCGGGCCACAGATCCAGATGCTGGACCGAATGGTCAGGTGCGATATCGGCTCCTCACCTACGCATCTCTCTTCAGCATTAACACTAACGGCAGCATATTCACAGCTGTGCCTCTGGATCGGGAAACTCAGAGTCAGTATGAGGTGGTGGTGGAGGCTTCAGATGGGGCAGTGGATCCTCGACGCACAGTCCTCACACTGATGGTGCGAGTGTCAGACATCAATGATAACAGCCCTGTCTTTTCCCAGCCATTTTACGTTGTCAATGTACCTGAAAACACTCCAGCCGGAACCATCATACTGCGCCTTAATgCTACAGATGCAGATCTTTTCTCTAATATAACATATCGGATAAGGACAGAGGCAGCTCGGCAGCTTTTTGCAGTGGACAGGATCACTGGAGCTCTGTCAGTGCTGCAGTCTCTGGACTTTGAGGCTTTGGGCCGAGATGGTGCTAACTACACCTTCCAGGTAGAGGCGCTGGATTATGAAGGTGTCCTGCCCCCTGGAATCGCTACAGTTACAGTGAGGATTACGgATATGAATGATTATACTCCGGTCTTCACTCGGCCTCTGTATAAAGGCATGGTGGCTCCTAATGCTGAGAAGGGAACATTAATCACAACAGTGCTTGCAACTGATCAAGACCCTCCTGGGACACCAGCCAGCAGGGTGCAGTACAGAGTGGACCAGGAACAGTCTCCCTACAGCGGTAGCATCTTTGATGTAGAGGAGACCTCAGGCAGAGTCGTCACTAAAGTGAATCTAAATGAGGAGCCCAGCACTACCTTTAAACTGATAGTGATTGCTTTTGACGAGGGTGAGCCAGTGAAGATGAATACAACGCTAGTGGAGATCACCGTCCTGCAGCCCTCCAGAATACCCATCTTTACAGAGGAGGAGTACTGGTTCAGCCCAGTGAGTGAGAACGCTCCGATCGGCCAGGCTGTAGGAATGGTTCTTGCAGCAGCTGCAAACACCACCGTGTTCTACTCCATCGTGGGAGGCAATCAGGGGGGTGAGTTTAGAGTGGATAACCGCACTGGAATGATATACACCGCAAAGCTGCTAGACTATGAGACACGCATCAGCTATGAGCTCCGTCTGCAGGCCGACTCTCTGGCCCTTGTTCTGGCCAACCTGCGTGTGCCATCCAAAACTAACACAGCCAAGGTGTTTATCAACGTGCAGGATGAGAACGATCATCCTCCAGTGTTCACAGAGTCCCTGTACATCGGCGGAGTAACTGAGGACACTAAGACCTTCACGTCAGTCCTGAAGGTTATCGCTACAGACATAGACACGGGGAACTACAGTAAGATGGCGTACAGGCTGATCATCCCCCCTACTCCAGAGGGTCAGGACAGCTTTGTCATCGAGCAATACACTGGCATCATCAAAAGTGCCATCATGTATCGCAACATGCGCCGCTCTTACTTCAAATTTGAGGTCATTGCCACTGATGACTATGGAAAGGGTCTGAGCAGCAGTGCTGAGGTGGTgGTGTCTGTGGTGAATGCATTGGACATGCAGGTAGTGGTGTCCAATGTGCCGCCTACCGTAGTGGAAGAGAACAAAGAGCAACTTGTCAGGATTCTCGAGCGCTATGTGCAGGACCAAATCCCTGGAGCGAAAGTGATAGTGGAATCCATCGGACCACGGCGGCATGGGGAAGGGTATTCATTAGAGGACTACAGCAAATCAGACCTGCAGGTGTATGCCATCGACCCTCTCACAAACAGGGCCATATCTAGACAAGAACTCTTCAAGTTTCTGGATGGTAAGATTCTAGACATTAATAAAGAGTTCCAGCCATATCTGGGTGAAGGTGGGAGGATTTTGGAAATCCGCTCACCAGACATTGTGGCTACGGTGAAGAAAGCTGCCCAGGCTGTGGGCTACACAGAGGGGGCGCTACTTGCCctcgccatcatcatcatcctctgcTGCATCCCTGCCATCCTCATCATCATGGTCACCTACAAACAATTCAAAGAGAAACAGGCCGAGTGTGCCAAAACTGCCCGCATCCAGAGATCACTTGCCGCTTCAAAATCTGCTGCTGCTCCAGCTCCGGTTTCAGCTCCAGCTTCAGCTCCATCCAATCTCTACGAGGAGCTTGGGGATGGCAAAATGCGTGGATATGGCAGAGAGCAACAGCAGCTGCTGAGGCCATCTTTGCTCAGGCCGGAGGCACTCTCTATGGAATCGGGTATTGACCCCGGGCAAGACTACTATGCACAAGACTATTACAGCTATGATCAAGGGTATGATCCATATCCTCCTTATGGCAGCCGCAGGAGGTTGATATCTCCCATGTATGATGAGTACGGAGAGGCCATAATGGACGATGATGGCTACTACTACAGTGCCTATGGCCCAGAGGCTGTCAGAAAGAAGCAGATGAAGTTAATTGTGGAGAAAGAGGGTGAGTCAACGACTACAGGAGAGGACAGTGGTCCAGACATCCAGCGGAACCGTCTGCCTAATGTTAACTGTCAAAGCAATGTCAATGGTTCAGTGTACCTGGCACAGAATGGTACGATCATTAGAACCCGACGGCCACCGTATCCtaataacataaaacatttttcaccTGGGCGGCTAGGAAAACAGTTCAAGAAGCTGGACAAGTTAGGAGTCACGCAGGAGGAACATTTGCCTTTAAATAGTACAGTGGATAATGGACCTACTATAGGAACCACTGCCACACTTTCATCTACGACTAACAACAACCTCGACACCAGGCCCATACCCTGGTCCATAGGGTCTAGTATGGGGCCAAAGTCCAACATTGTTAAAGCGCGTTTGGACCACGAGCAGGGGCGCTGTCAGCAGGAGCAGGAGTCCAGAGTGGACAATGATGAGGTCAAAGAGACCGTTGAGTCTCCAAGTGATCACACACTGTCAGATGAGGAAGAGTTGTGGATGGGCCCCTGGAACAACCTTCACATACCAATGACAAAACTCTGATGTcactgatattttatttctactttggttgaattgttgtattgtttttatttctcttttctcaaaCTGATTTCCACAGTCTTTTCCTATATGCATATC

Function

GO:

id name namespace
GO:0006897 endocytosis biological_process
GO:0035315 hair cell differentiation biological_process
GO:0050974 detection of mechanical stimulus involved in sensory perception biological_process
GO:0007423 sensory organ development biological_process
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules biological_process
GO:0005886 plasma membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005509 calcium ion binding molecular_function

KEGG:

id description
K16500 PCDH15, USH1F; protocadherin-15

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
XR_004577905.1 lncRNA downstream 2519 17116954 ~ 17129613 (-) True LOC117596916
TU56682 lncRNA downstream 41549 17090382 ~ 17090583 (-) True G47940
TU56621 lncRNA downstream 123083 17008840 ~ 17009049 (-) True G47882
TU56451 lncRNA downstream 343403 16788519 ~ 16788729 (-) True G47735
TU56444 lncRNA downstream 364622 16765709 ~ 16767510 (-) True G47731
XR_003404617.2 lncRNA upstream 94784 17371442 ~ 17419407 (-) True LOC113545496
TU56927 lncRNA upstream 223975 17500633 ~ 17503860 (-) True G48158
TU57004 lncRNA upstream 372473 17649131 ~ 17662704 (-) True G48195
TU57070 lncRNA upstream 432263 17708921 ~ 17710376 (-) True G48248
TU57076 lncRNA upstream 439577 17716235 ~ 17727208 (-) True G48250
XM_026933946.2 mRNA downstream 149403 16979131 ~ 16982729 (-) True morn4
XM_026933955.2 mRNA downstream 150120 16979131 ~ 16982012 (-) False morn4
XM_026942679.2 mRNA downstream 159661 16968321 ~ 16972471 (-) False st3gal7
XM_026942688.2 mRNA downstream 159699 16968321 ~ 16972433 (-) True st3gal7
XM_026944408.2 mRNA downstream 239389 16877460 ~ 16892743 (-) False LOC113545189
XM_026937770.2 mRNA upstream 186054 17462712 ~ 17465611 (-) True ipmka
XM_026935666.2 mRNA upstream 194589 17471247 ~ 17476092 (-) False cisd1
XM_026935656.2 mRNA upstream 211371 17488029 ~ 17491675 (-) True galm
XM_026932098.2 mRNA upstream 236523 17513181 ~ 17522014 (-) True hells
XM_034302554.1 mRNA upstream 284746 17561404 ~ 17574422 (-) False LOC113538666
XR_004577773.1 other downstream 149403 16979131 ~ 16982729 (-) False morn4
XR_004577771.1 other downstream 149403 16979131 ~ 16982729 (-) False morn4
XR_004577772.1 other downstream 149403 16979131 ~ 16982729 (-) False morn4
TU55523 other downstream 1715649 15413941 ~ 15416483 (-) False c3h10orf53
TU55100 other downstream 2347398 14779865 ~ 14784734 (-) False sdhaf4
TU56907 other upstream 194529 17471187 ~ 17476061 (-) True cisd1
XR_004577786.1 other upstream 285674 17562332 ~ 17574422 (-) False LOC113538666
XR_004577787.1 other upstream 285674 17562332 ~ 17574422 (-) False LOC113538666
TU56951 other upstream 380923 17657581 ~ 17661384 (-) False col13a1
TU57664 other upstream 1053710 18330368 ~ 18613401 (-) True lrmda

Expression Profile