XLOC_009824 (rorc)


Basic Information

Item Value
gene id XLOC_009824
gene name rorc
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 17913936 ~ 18088024 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00019616
TGATTAAGACATAAATcttcacgagagagagagagagagagacagcggTTCACACATGCTGTGAAGATGATGCGAGCTCAGATTGAGGTGATCCCATGTAAGATCTGTGGAGACAAGTCATCAGGGGTTCATTATGGAGTCATCACTTGTGAAGGCTGCAAAGGTTTCTTTCGCAGAAGTCAGTCCTCTAGCGTGCAGTACTCATGCTCCAGACAAAGCAATTGCCCCATTGACCGTGCCAGCCGTAATCGTTGCCAGAGCTGCCGTCTAAAAAAATGTGTCGCTCAAGGAATGAGCCGAGATGCGGTGAAGTTTGGGCGAATGTCCAAGCGTCAGAGAGATTCACTATTTGCAGAAGTTGAGAGACATCGCCAGCATCAGCGTCTTCAAGCCAACTCAGTCCAGGAGCCCCAACCTCTCCAAGCCTACCGATCCAGCAAAGATACCAGAGAACAGCCATCACATCTCATCCCACCTCTACCGGCAGCCTACCCTTTTTCTGTAGAGCCAGAACTTGCAGGCTGCCCAGCAGAAGTAATTCCATACCTGGACTGTCACATAGTTGAGGCCCAGACTCAGGGTTTGGCCTATAGAGTCCCCCTCAGGAGAGGTGAGAACAACAGCTTGTCAGCTGGGAGAGgaTTTGAGTCCACAAGATCTACACCTGAGTCTATTCTGAACATGACTGGGAGTGAAATGGGGTTTCATCCTTTTGATCCTGAGAGCTCATTCTTTTCCTATCCAACCTCTCTACAAACAGGTGAGAAGAAGTTAGTTTACCccgaaacacttttttttttctttaattaccCATGCTGTTTGAAGCCCAtatcttaaagagcccctattatacatgaaatagggtcatattttggtcgTAAggcaacagtctaatatgcatgcaaggtcaaaaaacactttcagagTCTTATAGTATGCAttcatttttacctaattatcccagcgactcccatatgaatcattcagcgattcatttgttcctaaacccctccttagcgcgaagctaatctgtgctgattggaccaatgacagcctgctGCGATTGGTTGACACTGACAGTCTTCAGCACGAGACAAAGTAAAATGCCCAGCAGctacaatataacaatataaaaagtaatataaaagtagtcacagtgcatacacgcttcatagtgtaaggcatggattttggctgccagtgggtcaatgcaAATACAGACGAtagacttgaaaatacagacgactaactattttattgaaaaCTCCAATAACTGGGGAGGAGATCAACACAAGTCTTCCAGCCTTCACACTCTACCTGCTATttcttc
>TCONS_00019617
CATAAATcttcacgagagagagagagagagagacagcggTTCACACATGCTGTGAAGATGATGCGAGCTCAGATTGAGGTGATCCCATGTAAGATCTGTGGAGACAAGTCATCAGGGGTTCATTATGGAGTCATCACTTGTGAAGGCTGCAAAGGTTTCTTTCGCAGAAGTCAGTCCTCTAGCGTGCAGTACTCATGCTCCAGACAAAGCAATTGCCCCATTGACCGTGCCAGCCGTAATCGTTGCCAGAGCTGCCGTCTAAAAAAATGTGTCGCTCAAGGAATGAGCCGAGATGCGGTGAAGTTTGGGCGAATGTCCAAGCGTCAGAGAGATTCACTATTTGCAGAAGTTGAGAGACATCGCCAGCATCAGCGTCTTCAAGCCAACTCAGTCCAGGAGCCCCAACCTCTCCAAGCCTACCGATCCAGCAAAGATACCAGAGAACAGCCATCACATCTCATCCCACCTCTACCGGCAGCCTACCCTTTTTCTGTAGAGCCAGAACTTGCAGGCTGCCCAGCAGAAGTAATTCCATACCTGGACTGTCACATAGTTGAGGCCCAGACTCAGGGTTTGGCCTATAGAGTCCCCCTCAGGAGAGGTGAGAACAACAGCTTGTCAGCTGGGAGAGgaTTTGAGTCCACAAGATCTACACCTGAGTCTATTCTGAACATGACTGGGAGTGAAATGGGGTTTCATCCTTTTGATCCTGAGAGCTCATTCTTTTCCTATCCAACCTCTCTACAAACAGAGGAGCTTGCTGCAAGTATTATACGCTCACATAAAGAGACCACTCAGTATCGACTGGAAGAACTGCAGGCTCTCAGATGGAAGGTTTTCAGCAGGGAGGAGGTCCACATATACCAGAGCAAACCAGTGGATGAGATGTGGCAGTACTGTGCTGTACGTTTGTCAGATGCCGTTCAGTATGTGGTGGAATTTGCTAAACGTATCCCAGGGTTCCGCCAGCTTTGTCAGAATGATCAAATTGCTCTCCTCAAGAGTGGGTCCATGGAAGTGGTTCTGGTCCGGATGACTcggatgtttaacacagcaaacAACACAGTATTCTTTGATGGCAAATATGCAGGGACAGAACTCTTCAAATCTCTTGcATGTAGCGATCTAATAGCTGCAGTTTTTGAATTCGCTAACAATCTGTGTGCACTGAGACTGaatgaacagcagatggcggtgTTTACAGCAATGATCCTAATCAATCCAGATCGACCATGTCTGGAGGACAGGGAAAGAGTTCAGAGAGTAAGGACAGAAGTTGAGCTTGCCCTTAGACACATACTGCACAGAGATAATCAAGAGAGTCTACTGCAGAAGCTGTATCAGAGAGTGCCGGTGTTGAGGTCTATGTGTGCACTGCATATTGAGAAACTGCAATGGTTCCGGCAGCTTTACCCTCTCACTGTTCATTCCCTTTTCCCTCCACTATACAAAGAGCTTTTTGGCTCTGACGCAGATATACATTCACTGACCACACACTAAACAAACACTGACACATTTCAGTTTCAGATATAGAAATGATATCATATCACATACAGTAGTGTATGCATTAAaggtttaaatatattattaacctgataaaataaacattcttgCAACTCCTAAAAAAACATAATGTCTATTGTCTACCGTTTAGTGTAATTTCTAATCAaaatatctcactttgattattctaaaacattatatatttgaatgttttttgaaAGACCTTTAATCCTTACAATAAAACTTTACTGCTTATAAAGATATTGATATGACCAAATACACAATTAAAGATTTCAAATCTCTGTCAAATATAGTGAGTTCAGGAACTGGCATCTTTGAACTGAAGTTATTTAGCAATTGTGAATTATTTTTTCTCAGATACATGTATGCTTAGTGATTTGTTACCTATAGCCTACTACATTACTGCATTAATTTAACTATGGTCATCTGTTCTGACACCTGATATGTCACTTTTCTATACTTCTTTCACATTAAAGCTTGTCTTGGTAATTGT

Function

symbol description
rorc Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and nuclear receptor activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in immunodeficiency 42. Orthologous to human RORC (RAR related orphan receptor C).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0004879 nuclear receptor activity molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0003707 steroid hormone receptor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko04659 Th17 cell differentiation
ko04710 Circadian rhythm
ko05321 Inflammatory bowel disease
ko03000 Transcription factors
ko03310 Nuclear receptors

ZFIN:

id description
ZDB-GENE-110411-42 Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and nuclear receptor activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in immunodeficiency 42. Orthologous to human RORC (RAR related orphan receptor C).

Ensembl:

ensembl_id ENSDARG00000087195

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00019616 False 1330 mRNA 0.45 5 17913936 17985859
TCONS_00019617 True 2017 mRNA 0.43 11 17913945 18088024

Neighbor

gene id symbol gene type direction distance location
XLOC_009823 them4 coding upstream 115524 17763848 ~ 17798412 (+)
XLOC_009822 si:dkey-87o1.2 coding upstream 194144 17714664 ~ 17719792 (+)
XLOC_009821 NA coding upstream 243479 17669300 ~ 17670457 (+)
XLOC_009820 NA coding upstream 247005 17665762 ~ 17666931 (+)
XLOC_009819 NA coding upstream 312036 17600877 ~ 17601900 (+)
XLOC_009825 si:dkey-17m8.2 coding downstream 54103 18142127 ~ 18153001 (+)
XLOC_009826 NA coding downstream 414542 18502566 ~ 18512199 (+)
XLOC_009827 rxrbb coding downstream 446810 18534834 ~ 18572875 (+)
XLOC_009828 slc6a19b coding downstream 886040 18974064 ~ 18998549 (+)
XLOC_009829 si:ch211-254p10.2 coding downstream 924994 19013018 ~ 19023116 (+)
XLOC_009818 FP015958.1 non-coding upstream 343002 17570810 ~ 17570934 (+)
XLOC_009817 NA non-coding upstream 362877 17548791 ~ 17551059 (+)
XLOC_009831 NA non-coding downstream 1287610 19375634 ~ 19412421 (+)
XLOC_009832 NA non-coding downstream 1292842 19380866 ~ 19381292 (+)
XLOC_009833 NA non-coding downstream 1420714 19508738 ~ 19513991 (+)
XLOC_009837 BX005389.4 non-coding downstream 1598689 19686713 ~ 19715210 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000016_09299769_09306497 RORC coding CI01000016 null 9299769 ~ 9307385 (+)
bowfin (Amia calva) AMCG00005820 NA coding CM030142.1 CM030142.1 10412525 ~ 10416137 (+)