XLOC_009827 (rxrbb)


Basic Information

Item Value
gene id XLOC_009827
gene name rxrbb
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 18534834 ~ 18572875 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00019620
CActacatattttactagataattataatgtagggtgacgcggtggcggaGAAGAtagcacgttcgccttacagcaagaaggtcgctggttcgagcctcggctgaatcagttggcatttctgtgtggagtttgcatgttctccccatgtttgtgtgggtttcctccggctgtgctgtttcccccacagtccaaagacatgtggtacaggtgaaatagGCATGCTAAAAttaaccatagtgtatgagtgtgtgtgaatgtgtttatgTTTCCCATGGGTtatggatggaagggcatccgctgcgtaaaaaaatatgctggatagcTTGGCCGTTAattccgctatggcaaccccagattaataaagggactgagctgaaaagaaatgaatgaattataatgtAGCTCAGGCAGTTGGAAAATGATCATACTGTCATGCTTTGGCAAGGATGATGAGGTCATGTTACAgataactaaattaaattttacaCTTTACTAaaacagatatttatttataaacaggCTACAGTGAAAATATTTCTATATGAGAAGGAGACCTTTGTGAACAGATGATACACAATCTTGAAAGACAACCAATTGTATTATCCCCCcaaataattatatttgtgtattcATAGCAAAAAAAACGATTTGGACATAATATAGTACAAAGAACATCACGTACTTTCCTgcgtgtatatttatttaattatttgtttatttatttatttgcttgcatACATTTCTGATGTGAACAGACTCTTAGTGTCCACTAGGAGGCTTGACTAACAAGGTATTTGTCTGGACGCAAACATTTATGGCGTAAACTGAAAATATAGACGAAACCATGCATTAAAGGACACGAATCGTTGCTGTTGGAGGATTCGGCGTTTGTTGGAGATATTTAAGATGAAACGCTTTTGAAATGGTGGATATTAAGATAATCAAAGATCAACAGTCTCCCCTGTATTGGCCAGTCTAGTGTGCATCTATGAACTCCTTACCGCCCTCCACTTCTGCCGTCAGTAGCCCTGTCAGCTCCGTAGATTCGCCACTGTCAGCCGTCAGCTCGTCCATCGGCTCTCCTGGCGTTCCCGGCACCCCATCCATCGGATATGGACCCATCAGCAACTCTCAAATAAACTCCTCGATGTCGGTGTCTGCATTACATGCTGTCAGCAGCTCTGATGATGTGAAACCCCCCTTTGGCTTAAAGTCTGTCAGTGGCTCTGGGCCAATGCTCTCCCAGAAACGCATGTGTGCAATTTGTGGGGACCGATCTTCGGGGAAGCATTATGGCGTGTACAGCTGTGAAGGCTGCAAGGGTTTCTTCAAACGCACAGTCAGAAAGGACCTGAGCTACACCTGCAGGGACAACAAGGAGTGTCTGGTTGATAAACGTCAGCGCAATCGTTGCCAGTACTGCCGCTATCAGAAGTGCCTGGCCATGGGAATGAAAAGAGAGGCTGTTCAGGAAGAGCGTCAGAAGAATAAGGAACGGGATGGAGACTATGAATGCAGCAGTTCAGCCAATGAGGAGATGCCTGTGGAGAAGATCCTGGAGGCCGAGACAGCTGTAGAGCACAGAACAGACCTGCACTCTGATGCCACTGGTTCACCCAATGATCCAGTCACTAACATCTGCCAGGCTGCTGACAAACAGCTGTTCACTCTGGTGGAGTGGGCCAAGAGAGTCCCTCACTTCTCTGAGCTGCCGCTGGATGACCAAGTCATTCTGCTCAGAGCCGGGTGGAACGAGCTGTTGATTGCTGCCTTCTCTCATCGCTCCATCAGTGTGAAGGATGAGATTCTGTTGGCCACAGGTCTCCATGTGCCCAAAGAGAGCACTCACAACTTGGGCGTGGAGGCCTTTTTTGACAGGGAGAGTTCACACAGTGCAGAGGTGGGAGCCTTATTCGACAGGGTTCTTACTGAGCTGGTCTGCAAGATGCGTGACATGCAAATGGACAAAACTGAACTTGGCTGTCTGCGTGCCATAGTTCTGTTTAACCCAGATGCCAAAGGTCTGACAAGCAGCAGTGAAGTGGAGCTCCTCAGAGAGAAAGTGTATGCGTCCCTGGAGTCCTATTGCAAGCAGAAGTATCCAGATCAGCAAGGGAGGTTTGCCAAGCTCCTCCTTCGGCTTCCTGCATTGCGTTCCATTGGCCTTAAGTGTCTGGAGCACCTTTTCTTCTTTAAACTGATTGGAAACACCCCCATTGACACTTTCCTAATGGAGATGCTGGAGTCGCCCCACTAGTTGCGTCAGAGGAAAATTGGGAGATTTTCTGCCCTAGGTCCTGGAGATAACTGTGACTGCACTTTTTATTCCCAGAGGAATTACAGCAATTGGTCAGCCTCTGGTCTGGgggtaacttttttatttaattttttttttgtcatttcttttcatttttttttttctcttgactATCTCTTAAGTGCACCATAGAGTCTAGAGACCCAAAACTTGCCATGAAAAATTATTGGTGCTACATTTGAAAAGTAAGCTaattcttcatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattagacaacaagtttaaaatgtttttaagtatGGAAGCTCCAGTTACCTGACTGGTTTAGATAAGTGGGGTTTACATTTTGATAGAACCATTTGAGGCTTTTAAAACACTGTGGATGATAAGCTTTAAACGTATGTAAGTGTGCTTCACCATCTCTTAAGTTTGGGTGCTTTCTTCCTGTAAGGCTAATTTATTTTGCCCCTACCTGTAAGGACTGGTCTTGTGGGCAgaggatagatagatgaatgaattGGTTTGGTATTTTAGgtttaaattgacatttactTTGCTAGCGAATCTGGCAAAGCAATCTATATGCAATGAAGCTTGAAACGATGCAAAACACGAAAAGACTAGATGTTTAATCTccaaaaatatttgcaatttttaCGTGATATTGTGCAATGTTAGCCTAAATTCAGAGGTGGATGTGGATTTTATCACGTCATGAGTGCCTAACTGACATATGCttgatatatgtttttttatttaacgttTGACAGAAGAATGGAAAAACGAAAAGACGAATCTCTGTTCTTGTCATCGAAGCAGGTCGATTTTCTTTTGCTCTATTTTTGTTTTGCCTGAAGTATCCTAGGCTGAATTTGTCTTAAATCTGCATTGGTTTTAACTAGTTAACCGTCAGTTAATAATACACTCTCTTCTCTTATTGCGTATCAGGTAACTGTGTAAGAGTGATAATTCCTTAAGAAAACTGcactacacacacaaaaaaatgtcattccttttattttttcctttttttttcggACCAGTGTcagattaaaaacaacaacaacaacaaaaaataattaagttggtGCTTCGGAATCGACATTTGATATTACAACCCTAAAAAGTGCACAGGTAAAACTGCAAAAAGGAAAAGTACAGCTATCTTCAGCTTTATAGAGATACTAAATCCGAGCAATATGAGTTCATTGGTGTGGACTTGCTGTTTGTATTTGGAAAACCTTCCAACTTGAAATTTCTACAATTAATTTCCTCTAGTACTGTGCAGACCCTATTGTTCAGGGACATTGTGTAGCTATTGTGTAGACATAGACaggatcaatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatttctcttgCTTTTATCACTTTCTTTAGTTTGTAGTCGACATACAACTTGCAGAAAAGACATAGTTTGCACTGGATTTTACCATGAATCCTAGACTTGGATTTTGTCTTTTATCTCCTTTCTGTGATCTAAGCTTATTTGCTTTTCGTTTTCTTTTGACCTACCATtgagatttgtttttctttcttttcttttgcttttCCATGGCATCTTTTTGTCCTTGCAGAGAAAGTTATGAGGACAAATGCAAACTCACTTTTGCCATAGATAtatctaacaaacaaacaaggttGTTTTTGTATGGTCTTGTACAACCAACATCTTTACTGCATTAGGCATGTTACATGTCTGTTGTTGCACTAAAATTGTCATACAATTATGATTGTAATGAGATTCCATCAGTTTCGATGTTGTCACAGCTCATTTTAGAGGAGCTCTGTGACACTGCAAGAAAACCATCTGCTGTACATGACCCTAAATAAAGGTGGTGATATGTCTAACAACTCTGTTcttggagagtttttttttttttttttttttttgaggattgAAGAAAGTAAAAGCTTGGTGAGTGTAAAACTCAATTTCCATTGCAAATTTGCAAGCtagtttttacattaaaaactattataaaataaCCATTAACCCTTGTTGTATGATTAAAAAGCCTCTTGCTATGAGTCAGGCAATAATATTCAGATATATTGGTTAAACGATCATGTGATTTGGAACAGGTagtaggtgcgttcgacttcatgcagcgctgcgcagatcaatgtcgactgtcacatgtggcatcaaagctCTGAGATCAGACGGCAGACTTAGAccgtgcagcatctgaagagcggctgcaggagctctgatgacgacaccgatattacaccattggccgagttcaccacatgacaataaacacgtgtatttcgggtttattattggacaaattgcgattcaaaagtttcaatacaaacaattcacttttcatctcctctctatcttgtacacatcatgcttattaaaaaactacaaatattttactgcagtatcatcttttgttaaataatctggttataaaggctgGCTTGTTAGCAAAGGTTTATTTTCGacctttttatacagactatttactgcattcagctccacaaacaattttaattatatattttagtgaataacctatatatgaactcaaataagtcttacagactataaataaaataattatcatcattgatcctgccaccctaaagcttTCTTAACAAAAATCTTAGAATTCTGAAGTTTTCCTCagaagttataaagtcagaaataaaattgTGTTTGTTTCATGCAATTCTGAGATGAAAACTTGcaataacctttaaaaaaaaaaaaatttgttcagTGGCAAAAACTGGCTGTCCGTACATTAATACTAATCAGCGCAATCTGAAACCAGGTGAGTTTTGAATTCCAAAATCCATTGCATTTTTGAACTCATCATAGCTTTTTGACACTGGCAATTTGATTGTGTTGGCACAGGTGCTTGCAATGGGAAATTTAGAAGACCTTTCAAAAATGAGTCTGGGCTGTGGCACAATTGTTGAAGGAGGCAGTGAATCTAATCCCGTGGCAAACATCAAAATGTTCTGGAGGGAGACTCCTGTTTCTTGTTCTGAaaagattaaacaaaaaacaaaagaatatcACAAAATTTGTtatcaacaacaataaaatataatgttcAATCCTTTATCTCCAGTGTCAAGCAGATAGTCTCTCCAGTATCCCAGTATTCTTGTTTCTTCTTGTCGTCTGGTGCTACCAGGTTCACTGAGCTGTGGCTTGAAGACATCCTCCAGAGATACAGATGTTAGACTGTCAACACTGTAGCACATATAGGGTCTGAATGCAATAGGGTGTTGTTCCAGGGCATTAATGACATCCAGGGTGGAAAGCCCATCCCTAAATCTATAACCCAAATAGAAATCACAAAGTGATATCACTTCActcataattattatattatctcAAATTAGGAACAAGACTTACCTTTGTACAGAGTATTGGTTTCTGTATATAATGTACCACAGTATGAAATCCTTCACAATGTTGTCTTTGCCTTTTACACTTTGTGGGAAATCAAAACACCCAGCAGTCTGCAGCAAGCTTTCATACTTCTCAATCAGTGCGTGCAATTCATCTAGTGATTCTGCACTTGATATCTGGGGTAAATGGTTGCAATTAGATtacaaataacacacacacacacacacacatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatagcaaaaaaatatatattgtgcctttaaataaacaaacaaataaatgacttaAAAGAAACTTGACGCACCTCAATTAAAGCTGCCTTCATGGTTTCATCTGTTACATCCTCAACTGTTCCATTAATGTCAGTCCTACCAATGAGGTAATCATACAGCATGTTCGATAAAAAGCGAGGACCTGGACCACCATGTACAATAGAGACTGCAATCATCCGGCCAGCAAGGAAGTACTCATCTTCTCTGAAAGCtacaggaaaatatatt
>TCONS_00019621
TAACAAGGTATTTGTCTGGACGCAAACATTTATGGCGTAAACTGAAAATATAGACGAAACCATGCATTAAAGGACACGAATCGTTGCTGTTGGAGGATTCGGCGTTTGTTGGAAGATAATCAAAGATCAACAGTCTCCCCTGTATTGGCCAGTCTAGTGTGCATCTATGAACTCCTTACCGCCCTCCACTTCTGCCGTCAGTAGCCCTGTCAGCTCCGTAGATTCGCCACTGTCAGCCGTCAGCTCGTCCATCGGCTCTCCTGGCGTTCCCGGCACCCCATCCATCGGATATGGACCCATCAGCAACTCTCAAATAAACTCCTCGATGTCGGTGTCTGCATTACATGCTGTCAGCAGCTCTGATGATGTGAAACCCCCCTTTGGCTTAAAGTCTGTCAGTGGCTCTGGGCCAATGCTCTCCCAGAAACGCATGTGTGCAATTTGTGGGGACCGATCTTCGGGGAAGCATTATGGCGTGTACAGCTGTGAAGGCTGCAAGGGTTTCTTCAAACGCACAGTCAGAAAGGACCTGAGCTACACCTGCAGGGACAACAAGGAGTGTCTGGTTGATAAACGTCAGCGCAATCGTTGCCAGTACTGCCGCTATCAGAAGTGCCTGGCCATGGGAATGAAAAGAGAGGCTGTTCAGGAAGAGCGTCAGAAGAATAAGGAACGGGATGGAGACTATGAATGCAGCAGTTCAGCCAATGAGGAGATGCCTGTGGAGAAGATCCTGGAGGCCGAGACAGCTGTAGAGCACAGAACAGACCTGCACTCTGATGCCACTGGTTCACCCAATGATCCAGTCACTAACATCTGCCAGGCTGCTGACAAACAGCTGTTCACTCTGGTGGAGTGGGCCAAGAGAGTCCCTCACTTCTCTGAGCTGCCGCTGGATGACCAAGTCATTCTGCTCAGAGCCGGGTGGAACGAGCTGTTGATTGCTGCCTTCTCTCATCGCTCCATCAGTGTGAAGGATGAGATTCTGTTGGCCACAGGTCTCCATGTGCCCAAAGAGAGCACTCACAACTTGGGCGTGGAGGCCTTTTTTGACAGGGAGAGTTCACACAGTGCAGAGGTGGGAGCCTTATTCGACAGGGTTCTTACTGAGCTGGTCTGCAAGATGCGTGACATGCAAATGGACAAAACTGAACTTGGCTGTCTGCGTGCCATAGTTCTGTTTAACCCAGATGCCAAAGGTCTGACAAGCAGCAGTGAAGTGGAGCTCCTCAGAGAGAAAGTGTATGCGTCCCTGGAGTCCTATTGCAAGCAGAAGTATCCAGATCAGCAAGGGAGGTTTGCCAAGCTCCTCCTTCGGCTTCCTGCATTGCGTTCCATTGGCCTTAAGTGTCTGGAGCACCTTTTCTTCTTTAAACTGATTGGAAACACCCCCATTGACACTTTCCTAATGGAGATGCTGGAGTCGCCCCACTAGTTGCGTCAGAGGAAAATTGGGAGATTTTCTGCCCTAGGTCCTGGAGATAACTGTGACTGCACTTTTTATTCCCAGAGGAATTACAGCAATTGGTCAGCCTCTGGTCTGGgggtaacttttttatttaatttttttttt
>TCONS_00019622
AAACTGAAAATATAGACGAAACCATGCATTAAAGGACACGAATCGTTGCTGTTGGAGGATTCGGCGTTTGTTGGAAGATAATCAAAGATCAACAGTCTCCCCTGTATTGGCCAGTCTAGTGTGCATCTATGAACTCCTTACCGCCCTCCACTTCTGCCGTCAGTAGCCCTGTCAGCTCCGTAGATTCGCCACTGTCAGCCGTCAGCTCGTCCATCGGCTCTCCTGGCGTTCCCGGCACCCCATCCATCGGATATGGACCCATCAGCAACTCTCAAATAAACTCCTCGATGTCGGTGTCTGCATTACATGCTGTCAGCAGCTCTGATGATGTGAAACCCCCCTTTGGCTTAAAGTCTGTCAGTGGCTCTGGGCCAATGCTCTCCCAGAAACGCATGTGTGCAATTTGTGGGGACCGATCTTCGGGGAAGCATTATGGCGTGTACAGCTGTGAAGGCTGCAAGGGTTTCTTCAAACGCACAGTCAGAAAGGACCTGAGCTACACCTGCAGGGACAACAAGGAGTGTCTGGTTGATAAACGTCAGCGCAATCGTTGCCAGTACTGCCGCTATCAGAAGTGCCTGGCCATGGGAATGAAAAGAGAGGGTGGGTACCTGTCAGTCTTTCACTGAAGACACATCACCTGTAACATGATGAACTAGGTCAGCTCTCTAAATTATAGGTGGAGCCATGTAAAAGCagtgtcatttaataaaaatagtgtGTTCTTAATGG
>TCONS_00021704
CATCTGCCAGGCTGCTGACAAACAGCTGTTCACTCTGGTGGAGTGGGCCAAGAGAGTCCCTCACTTCTCTGAGCTGCCGCTGGATGACCAAGTCATTCTGCTCAGAGCCGGTATGACTGTCTGACTTTTTCATTCACATTTTGCTGTAGTCTCATcagttctccctgcattcgcatgggtttcctccgggtgctccggtttctcattcattcattcattcattttcttgtcagcttagtccctttattaatctggggtcgccacaggggaatgaaccgccaacttatccagcaagtttttacgcagcggctgcccttccagccgcaacctatctctgggaaatatccacactcatacactatggacaatttagcctacccaattcacctgtaccgcatgtctttggactgtgggggaaaccggagcacccggaggaaacccacgcgaaggcagggagaacatgcaaactccacacagaaacgccaactgagccgaggttcgaaccagcaacctagccaccttcttgctgtgaggcg

Function

symbol description
rxrbb Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in negative regulation of transcription, DNA-templated. Predicted to be located in nucleus. Predicted to be part of RNA polymerase II transcription regulator complex. Is expressed in blastoderm; ovary; and testis. Orthologous to human RXRB (retinoid X receptor beta).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0030154 cell differentiation biological_process
GO:0048856 anatomical structure development biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0048384 retinoic acid receptor signaling pathway biological_process
GO:0032526 response to retinoic acid biological_process
GO:0090575 RNA polymerase II transcription regulator complex cellular_component
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:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0003707 steroid hormone receptor activity molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0044323 retinoic acid-responsive element binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-990415-242 Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in negative regulation of transcription, DNA-templated. Predicted to be located in nucleus. Predicted to be part of RNA polymerase II transcription regulator complex. Is expressed in blastoderm; ovary; and testis. Orthologous to human RXRB (retinoid X receptor beta).

Ensembl:

ensembl_id ENSDARG00000002006

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00019620 False 6341 mRNA 0.38 12 18534834 18572875
TCONS_00019621 False 1573 mRNA 0.50 11 18535618 18568930
TCONS_00019622 False 732 lncRNA 0.49 4 18535656 18540899
TCONS_00021704 True 536 lncRNA 0.52 1 18550523 18551058

Neighbor

gene id symbol gene type direction distance location
XLOC_009826 NA coding upstream 22635 18502566 ~ 18512199 (+)
XLOC_009825 si:dkey-17m8.2 coding upstream 381833 18142127 ~ 18153001 (+)
XLOC_009824 rorc coding upstream 446810 17913936 ~ 18088024 (+)
XLOC_009823 them4 coding upstream 736422 17763848 ~ 17798412 (+)
XLOC_009822 si:dkey-87o1.2 coding upstream 815042 17714664 ~ 17719792 (+)
XLOC_009828 slc6a19b coding downstream 401189 18974064 ~ 18998549 (+)
XLOC_009829 si:ch211-254p10.2 coding downstream 440143 19013018 ~ 19023116 (+)
XLOC_009830 rapgef5b coding downstream 456422 19029297 ~ 19151800 (+)
XLOC_009831 NA coding downstream 802759 19375634 ~ 19412421 (+)
XLOC_009832 NA coding downstream 807991 19380866 ~ 19381292 (+)
XLOC_009821 NA non-coding upstream 864377 17669300 ~ 17670457 (+)
XLOC_009820 NA non-coding upstream 867903 17665762 ~ 17666931 (+)
XLOC_009819 NA non-coding upstream 932934 17600877 ~ 17601900 (+)
XLOC_009818 FP015958.1 non-coding upstream 963900 17570810 ~ 17570934 (+)
XLOC_009833 NA non-coding downstream 935863 19508738 ~ 19513991 (+)
XLOC_009837 BX005389.4 non-coding downstream 1113838 19686713 ~ 19715210 (+)
XLOC_009838 BX005389.1 non-coding downstream 1131549 19704424 ~ 19704538 (+)

Expression


Co-expression Network