XLOC_019063 (chm)


Basic Information

Item Value
gene id XLOC_019063
gene name chm
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007132.7
NCBI id CM002905.2
chromosome length 45934066
location 34686764 ~ 34793909 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00037803
agTTTACGTCAGGCTGCTGTGTGTCACGTGACAGTGTGTGTGGTTTCAAGATGGCTGCGGAGGATCTCCCGTCTCAATTTGATGTTGTCATTCTCGGAACAGGCCTCACTGAGTCTGTCATTGCTGCGGCCTGCTCCAGAGTTGGACAAAGTGTTTTGCATCTGGACAGgAGGAACTATTACGCTGGAAACTGGGCAAGCTTCACTTTTAATGGCCTGCTGTCGTGGATTGAGGAATATAagAATCAGCAGGAGCTTCAGATCACAGAGTCGGAGCAAGAATGGAGGAGCTTGATTGAAGATGGGGAAGAAGTGGTGCCTCTTAACTCTGTCGATTCTTCTATTTCCAACTTAGAAGTTTTCTGTTATGCCAGTGAGGAAGAGGAGCAAGAAGAGGAAACCAAAGACCTGTTAACATGTCCGAATGCTGAAACTGTATCGGAAGAGACCAACAGTGACTCTACAGAAACTCAAGACACGGTTACAAGTGATGATGTTACAGAATCAAATGTTAAAGTGCAGAATGAAGAGAATGAAGATTCTGCGCCAAAAGAGCAGCTACATGCATCGGATATTTCTGAACACAGCCAGTCAATGGAGGAGAAACAGCCCAACAGAAGCCCAGCAGATCCACCTGCAGAGCTGCAGAAGAAGATAACATATCAAAAGCTGTTGAAAGAGGGACGCCGGTTCAACATTGACCTGGTCTCAAAGCTGATGTATTCACGTGGTGCACTGGTGGATCTGCTCATCAAATCTAATGTGAGCCGCTACGCAGAGTTCAAGAACATCGGCCGCATCCTCACTTGCAGAAATGGAAAAGTGGAGCAGGTCCCATGTTCACGGGCAGATGTGTTTGCCAGCAAGCAGCTGACCGTGGTGGAGAAGCGCATGCTGATGAAGTTTCTTACCTTCTGTCTGGACTTTGAGCAGCACCCAGAGGAGTACCAGGATTACTCAGAGAAACCGTTTAGTGAGTTCCTGAAGAATAAGAAGCTCACTGAGAACCTTCAAGATTTTGTCCTGCTCTCAATCGCTATGGTGACGCAACAGACCCTCACGGAGGAAGGACTAAAGGCCACACAGCACTTCCTGCGATGCCTGGGTCGCTACGGCAACACTCCCTTCCTGTTCCCCCTCTATGGCCTTGGAGAAATCCCACAGTGCTTTTGCAGAATGTGTGCTGTATTTGGAGGAATTTATTGTCTGCGACACTCGGTGCAATGTCTAGTTGTGGATAAGGAGTCCAACAAAGTTAAAGCAGTGATTGATACACGTGGCCAGAAGATCGGCTGCAGTCATTTTGTGGTTGAAGATTCCTACATCAGAGAGGAGCAAAGAGAGAGCATCGATTACAGGCAGATATCTCGAGCAGTGTTAATCACAGACAGATCTGTGCTGCCTTCAGAATCTGACCAGCAGATCTCTTTGGTGACCGTTCCTCCTGTGGAATCTTCTGGACCAGCTGTGAGGATGGTTGAGCTGTGTTCGTCCTCCATGACCTGCATGCCTGGCACCTGTTTGGTCCACTTGACCTGTTCATCGTCTGGTACGGCCCAGCAAGATCTTGCTCCAGTAGTATCTCAATTATTTCACATTCCCACCACTCCGGGAGAAGATCCTTCAGAAGGCACAGGGGAGATAAGCAAGCCTGCAGTGTTATGGGTCATGTACTTCAACATGAGGGACACGTCAGCCATGGACAGCAGCTGCTACAGCCTACCGAGCAACGTCCACGTGTGCACTGGTCCTGATGCTGGACTGGGCAGCGACTACTCCATTAAACTGGCTGAATCAGTATTTCACTGTCTCCTCCCTGATGAGGAGTTCTGCCCGCCTGCACCCAACCCTGAGGACATCATCTATGATGGTGACGCTCCACAGGCTGAAGGACCAGGGTTTGATGAGAGTAATGACACAGAAGCGAATAAAATCCAGGCAGAGGAAGAAGGAACCAGCAATGAGATGAATCCTGAGAACTCTGAAGCAGCAGAGATGGTCAGTGCTGCGCAGGAGACCACGCTGGACACCAATCCACCGTCTGAAGAGTAACTTCTTTAGAGGTGTTTGATTCACCGAGCATGTGAATTCACAAATGTGTCATGTTCTGGAGGGCCAGTAGGTCTCAAAGTTGACGTTTTCAATCCTGTTatgttctttttatatatattttatgtgccTTTCTTTTGCATTTTCACACTCTACACCCTTTATGCCATTTTATTTTGACCGGTAACTGTAAAGCAGGTTATAAGTTCGCTTTCTAAAAGCCAAAATGctgttctttttcttttatttcagaatGTGTTCTCAATTTTGCATGTTCCAAGCAAGGTgcctattatatatatttatttgaatgagGAAAAACACACTTGATTATGGCAAGGGATTGCTACTTTAAATTTTGTAAAGACTCATTTTTGTTACAATCTTCAATTTCAAATGTCTATTCAAATGCTCTCTTGTCTTAAGTCTGTTTTGCATCATTACATCCATTAAACCGCTATAAATATATCATGCAGAAATGGTTGCAGGCATTAAATCTTTAATTGACAAT

Function

symbol description
chm Enables Rab geranylgeranyltransferase activity. Acts upstream of or within several processes, including detection of mechanical stimulus involved in sensory perception of sound; iridophore differentiation; and sensory organ development. Predicted to be part of Rab-protein geranylgeranyltransferase complex. Predicted to be active in cytosol and nucleus. Used to study choroideremia. Human ortholog(s) of this gene implicated in choroideremia. Orthologous to human CHM (CHM Rab escort protein).

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0050910 detection of mechanical stimulus involved in sensory perception of sound biological_process
GO:0048798 swim bladder inflation biological_process
GO:0050935 iridophore differentiation biological_process
GO:0007264 small GTPase mediated signal transduction biological_process
GO:0043066 negative regulation of apoptotic process biological_process
GO:0042491 inner ear auditory receptor cell differentiation biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0098727 maintenance of cell number biological_process
GO:0001895 retina homeostasis biological_process
GO:0010842 retina layer formation biological_process
GO:0060042 retina morphogenesis in camera-type eye biological_process
GO:0018344 protein geranylgeranylation biological_process
GO:0005829 cytosol cellular_component
GO:0005634 nucleus cellular_component
GO:0005968 Rab-protein geranylgeranyltransferase complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005092 GDP-dissociation inhibitor activity molecular_function
GO:0005096 GTPase activator activity molecular_function
GO:0004663 Rab geranylgeranyltransferase activity molecular_function

KEGG:

id description
ko01006 Prenyltransferases
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-030318-2 Enables Rab geranylgeranyltransferase activity. Acts upstream of or within several processes, including detection of mechanical stimulus involved in sensory perception of sound; iridophore differentiation; and sensory organ development. Predicted to be part of Rab-protein geranylgeranyltransferase complex. Predicted to be active in cytosol and nucleus. Used to study choroideremia. Human ortholog(s) of this gene implicated in choroideremia. Orthologous to human CHM (CHM Rab escort protein).

Ensembl:

ensembl_id ENSDARG00000003845

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00037803 True 2559 mRNA 0.46 15 34686764 34793909

Neighbor

gene id symbol gene type direction distance location
XLOC_019062 trpc5b coding upstream 475106 34132747 ~ 34211658 (+)
XLOC_019061 hmgb3b coding upstream 556988 34119759 ~ 34129776 (+)
XLOC_019060 mtmr1b coding upstream 568234 34088110 ~ 34118530 (+)
XLOC_019059 NA coding upstream 600539 34078735 ~ 34086225 (+)
XLOC_019058 map4k6 coding upstream 611657 34033580 ~ 34075107 (+)
XLOC_019064 wdr55 coding downstream 20535 34814444 ~ 34843004 (+)
XLOC_019065 cdc23 coding downstream 55497 34849406 ~ 34880924 (+)
XLOC_019066 NA coding downstream 135675 34929584 ~ 34943930 (+)
XLOC_019067 rbm11 coding downstream 182691 34976600 ~ 34989915 (+)
XLOC_019068 tmprss15 coding downstream 198641 34992550 ~ 35041299 (+)
XLOC_019057 BX005313.1 non-coding upstream 921519 33756110 ~ 33765245 (+)
XLOC_019056 BX005313.2 non-coding upstream 1039832 33637083 ~ 33646932 (+)
XLOC_019054 NA non-coding upstream 1220957 33464424 ~ 33465807 (+)
XLOC_019051 NA non-coding upstream 1239154 33249220 ~ 33447610 (+)
XLOC_019073 BX247879.1 non-coding downstream 728793 35522702 ~ 35522834 (+)
XLOC_019074 NA non-coding downstream 1103689 35897598 ~ 35899398 (+)
XLOC_019075 NA non-coding downstream 1107008 35900917 ~ 35905585 (+)
XLOC_019076 NA non-coding downstream 1110476 35904385 ~ 35906582 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000040_04868857_04925336 NA coding CI01000040 null 4868857 ~ 4925832 (+)