XLOC_024342 (chmp1a)


Basic Information

Item Value
gene id XLOC_024342
gene name chmp1a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007136.7
NCBI id CM002909.2
chromosome length 37502051
location 37435335 ~ 37441657 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00048161
CGCGTGACGTGAGTTGATGAACCCGGAAAAGGGAGAGGAGAAGCTGAAGCGGAGACTCATAAACAAACACGCCGAGCAGAAAAGCAGCGAATAACCCGAGAGAAACCGCAGCAGACAGCGACATGGACGGTAGGAGAGCCTGCTCACGTTCACCTCGAAGCAGCTGGAGAGACTCGCCAAGAAGGCCGAGAAAGACTCTAAATCTGAGCAGGCCAAAGTCAAGAAGgctctgCAGCAGAAGAATGTGGAGTGTGCGCGTGTGTATGCAGAGAACGCCATCCGCAAGAAGAACGAGGGACTGAACTGGCTGCGGATGGCGTCTCGAGTGGACGCGGTGGCCTCTAAAGTGCAGACGGCGCTCACGATGAAGGGCGTGGCCAAGAACATGACGCAGGTCACCAAAGCGCTGGACAAGGCCCTGAGCTCCATGGACCTGCAGAAGGTGTCGGCCGTCATGGACAAGTTCGAGACGCAGGTGCAGAATCTGGACGTACACACCTCGgtgaTGGAGGACTCGATGAGCTCCGCCACCACCCTCAGCACGCCGCAGCAGCAGGTGGATGACCTGATCCTGCAGATCGCGGAGGAGAGCGGCCTGGAGGTGGAGGACCAGCTGAGTCAGCTGCCGGCCGGAGCCTCCGCCCTGGGGGAGACATCTGCACGCGCACAGGAGAAGGAGGACCAGCTGAGCCGACGgtTGGCTGCTTTACGCAACTGATGATCTTCAGATTCACTCAGTCTGTGCTGTTTGGACTTTATTAGAGGAGGATTTTTATaacaactccacacacacacacacacacacactcctgcgcTCCTCTTGTCTTCATGTTTGTTGTTTTTCTGGTTTTGCATATTTAATCTAAGCTGAGCTGCGGCGTTCCCCTCGCGCCCCTCACGCCTTACTGCTCCACACATCCAGTGCCTCCGccacagagagagtgtgtgtgtgtgtgtgtgcgcgcgcatgtgtatgtgtgtgcgcgcatattTTTGTgagtatgtatgcgtgtgtgtgtgtgtacgcgcatatgtctgtgtgtgtgtgcgtgtgtgcatgtgtgtgtgtgtgtgtgtttgcacacaTATTTTTgcgagtatgtatgtgtgtgtgcgtgcgtgtatgtgtgtttgcacaCATATTTTTgcgagtatgtatgtgtgtgcgtgtg
>TCONS_00048162
AAAAGGGAGAGGAGAAGCTGAAGCGGAGACTCATAAACAAACACGCCGAGCAGAAAAGCAGCGAATAACCCGAGAGAAACCGCAGCAGACAGCGACATGGACGGTAGGAGAGCCTGCTCACGGCGGAGACAGTCAACCTGTGTAGCCTGAGCTCCGTCAGAGCGGCTGTTGAGCCGTAATGGAGGATGAGCGGgagtgttattgttattatagtgGAGCTGATGGTGATGTGTGCAGTCATTACTCCTCAGCACTCCTGCTGTGTTGGTGTGAGCAGTGTCAGGGCTGTAGTGTACACATGAGTATCTGTTATGATCGAGTGAGttattgattattgatgatgattgTTGTGTTTCTCTCTCACAGACACACTGTTCCAGCTCAAGTTCACCTCGAAGCAGCTGGAGAGACTCGCCAAGAAGGCCGAGAAAGACTCTAAATCTGAGCAGGCCAAAGTCAAGAAGgctctgCAGCAGAAGAATGTGGAGTGTGCGCGTGTGTATGCAGAGAACGCCATCCGCAAGAAGAACGAGGGACTGAACTGGCTGCGGA
>TCONS_00048163
CTCACAGACACACTGTTCCAGCTCAAGTTCACCTCGAAGCAGCTGGAGAGACTCGCCAAGAAGGCCGAGAAAGACTCTAAATCTGAGCAGGCCAAAGTCAAGAAGgctctgCAGCAGAAGAATGTGGAGTGTGCGCGTGTGTATGCAGAGAACGCCATCCGCAAGAAGAACGAGGGACTGAACTGGCTGCGGATGGCGTCTCGAGTGGACGCGGTGGCCTCTAAAGTGCAGACGGCGCTCACGATGAAGGGCGTGGCCAAGAACATGACGCAGGTCACCAAAGCGCTGGACAAGGCCCTGAGCTCCATGGACCTGCAGAAGGTGTCGGCCGTCATGGACAAGTTCGAGACGCAGGTGCAGAATCTGGACGTACACACCTCGgtgaTGGAGGACTCGATGAGCTCCGCCACCACCCTCAGCACGCCGCAGCAGCAGGTGGATGACCTGATCCTGCAGATCGCGGAGGAGAGCGGCCTGGAGGTGGAGGACCAGCTGAGTCAGCTGCCGGCCGGAGCCTCCGCCCTGGGGGAGACATCTGCACGCGCACAGGAGAAGGAGGACCAGCTGAGCCGACGgtTGGCTGCTTTACGCAACTGA

Function

symbol description
chmp1a Acts upstream of or within cerebellum development. Predicted to be located in endosome; membrane; and nuclear matrix. Predicted to be part of ESCRT III complex. Predicted to be active in multivesicular body. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 8. Orthologous to human CHMP1A (charged multivesicular body protein 1A).

GO:

id name namespace
GO:0021549 cerebellum development biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0007034 vacuolar transport biological_process
GO:0015031 protein transport biological_process
GO:0007076 mitotic chromosome condensation biological_process
GO:0032509 endosome transport via multivesicular body sorting pathway biological_process
GO:0045324 late endosome to vacuole transport biological_process
GO:0016363 nuclear matrix cellular_component
GO:0005768 endosome cellular_component
GO:0005771 multivesicular body cellular_component
GO:0000815 ESCRT III complex cellular_component
GO:0016020 membrane cellular_component
GO:0005737 cytoplasm cellular_component

KEGG: NA

ZFIN:

id description
ZDB-GENE-040426-1474 Acts upstream of or within cerebellum development. Predicted to be located in endosome; membrane; and nuclear matrix. Predicted to be part of ESCRT III complex. Predicted to be active in multivesicular body. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 8. Orthologous to human CHMP1A (charged multivesicular body protein 1A).

Ensembl:

ensembl_id ENSDARG00000102643

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00048161 False 1172 mRNA 0.55 5 37435335 37441657
TCONS_00048162 False 552 processed_transcript 0.51 3 37435361 37439792
TCONS_00048163 True 597 mRNA 0.60 5 37435720 37441203

Neighbor

gene id symbol gene type direction distance location
XLOC_024341 slc1a2b coding upstream 27578 37366698 ~ 37407757 (+)
XLOC_024340 pamr1 coding upstream 69733 37340722 ~ 37365602 (+)
XLOC_024339 CU207301.3 coding upstream 98192 37331128 ~ 37337143 (+)
XLOC_024336 igl4v8 coding upstream 118161 37289088 ~ 37317174 (+)
XLOC_024343 slc10a3 coding downstream 1537 37443194 ~ 37445449 (+)
XLOC_024344 FO834799.1 coding downstream 5204 37446861 ~ 37460976 (+)
XLOC_024345 FO834799.2 coding downstream 25000 37466657 ~ 37476172 (+)
XLOC_024346 CABZ01095001.1 coding downstream 38628 37480285 ~ 37483366 (+)
XLOC_023973 CR762411.1 misc upstream 22217226 15217824 ~ 15218109 (+)
XLOC_024331 CU929365.1 non-coding upstream 591086 36844127 ~ 36844249 (+)
XLOC_024330 NA non-coding upstream 698077 36726590 ~ 36737258 (+)
XLOC_024328 CABZ01088576.1 non-coding upstream 925546 36509674 ~ 36509789 (+)
XLOC_024327 FO904923.1 non-coding upstream 978417 36456800 ~ 36456918 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000191_00371716_00372843 CHMP1A, CHMP1A.S coding CI01000191 null 371716 ~ 373871 (+)
bowfin (Amia calva) AMCG00020595 chmp1a,LOC106573671 coding CM030127.1 CM030127.1 25565583 ~ 25574610 (-)