XLOC_003931 (tbr1a)


Basic Information

Item Value
gene id XLOC_003931
gene name tbr1a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 10812949 ~ 10828539 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00007539
GACCCAGTCAAACCCAGGCTGAACTCCGACAACTTTCCCAGTGAGTTATGCACCTGCAGCAGCAGCTCATCTCACCGGCCAACAAACCGGTGAGTCTGGACAATGGTTTCCCGCACATCATCATGACCGCCGCCGCGGGGGTCGAGCGCgtctcctcctcctgctcctccggGGACGCGCACGAGCCGCCGCTGAAAAGACCAAGAAGCCCGTCACCAAACGCGCGGGAGACACAGGATAACGGAGAGAGCGAAAACAAGCCGGAATCAAGCGACCCCCGGACAGATTTCGCCTCGGAAATGTTCTCGTATGCGGGTCAACATGTGGTGCCAGCGCTCTCGGGTCACTATATGAGTCCTCAACCGGTCATCAGCAGCGGCTTGTACAGTGGGATGAGCTACTCGTACCCTCAGCCGTACGAACAAACTTACGCGAACGCAGCGGTCTATTCGTTCCCCGCGGTGTCCGGTAAAGCCCAGGTTTATCTGTGTAACCGGGCGCTGTGGTTTAAATTCCACAGACACCAAACTGAAATGATCATAACTAAACAGGGCCGACGGATGTTTCCGTGTCTAACTTTTAATGTTTCTGGTCTTGACCCGGCGGGTCATTATAATATTGCTGTGGATGTAATTCTGGCGGATCCAAACCACTGGAGGTTCCAGGGCGGAAAATGGGTCCCCTGTGGCAAAGCGGACACTAATGTTACCGGAAACCGAGTGTACACGCACCCGGACTCTCCAAACACCGGCGCGCACTGGATGCGTCAGGAGATCTCTTTCGGAAAACTTAAGCTGACAAACAACAAAGGGGCTTccagcaacaacactcagATGATCGTCCTACAGTCTCTCCATAAATATCAGCCAAGGGTTCATGTGATTGAAATAAGCAAGAATGAAGATGAAGATACCAGCGATCCTGATGGAGTTCAGACGTTCACCTTTCCCGAAACGCAATTTATATCTGTCACAGCTTACCAGAACACAGATATAACTCAACTGAAAATTGATCACAATCCATTTGCCAAAGGATTTCGGGATAATTATGATACAAAATACAGTATGGACAACACTGACCGTCTGACACCCAGTGACTCTCCACACTCTCAGCTTCTGCCCAGTTCAAGGTACGCAATGCCAAGCGCATTATTCCAGGAGCAATTTGTCGACAGTTACACTAAATCCTGTTTTACGACTGGCACTCCTGAGCGAGGACTTGAGTTTACTAACAGCATTATGACCTCCAACCAAACCCAAGAAAGCAGCGTGACTTCAGGCCAGCGCTGGTTTGTATCTTCACCCTCTGTTCCATCATACGAAGCTGATGTTGACACTGCGGCTCTGCTTTCTTACACCACAGCAGGGGTTAAAAATTTGCCTTTTACTAGTACTGGTGGCTCAAGTAACAGTTTGGATTACTATACCAGCACTGCCGGATGGGATTCACGGGGATCGCTAGAGAACGGGAGTAAAACCATTTCAAATCTCTCTGGGTGGGTTTTAGATGCAACTCTTGAAAGATCAATGCAACCGAATTACTTGCCAGATGACAGAGAATTGATGGAAAGATCCAGTTTAGGGGTTTCAGCGGAGCTTAGAGGAAAAGATGTGGTGGATTCGACATGGACTGATACTCAATCTTCTATTAAATCAGTCGATTCGAGTGATTTAAGGATTTTGGAAGAGGCACCAAAGGACGATTTGTCTATCCGTCCAGATTCAGAAGATCAGGCTGCAGAGGATGTGCAGAACAGAGCAAGAAATGGGATCAAAGAATCAGGCTTTTTTCATTTTGACGCTTAA

Function

symbol description
tbr1a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including commitment of neuronal cell to specific neuron type in forebrain; heart looping; and regulation of neuron projection development. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Is expressed in olfactory placode and peripheral olfactory organ. Human ortholog(s) of this gene implicated in autistic disorder. Orthologous to human TBR1 (T-box brain transcription factor 1).

GO:

id name namespace
GO:0001708 cell fate specification biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0010975 regulation of neuron projection development biological_process
GO:0021902 commitment of neuronal cell to specific neuron type in forebrain biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0001947 heart looping biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060810-93 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including commitment of neuronal cell to specific neuron type in forebrain; heart looping; and regulation of neuron projection development. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Is expressed in olfactory placode and peripheral olfactory organ. Human ortholog(s) of this gene implicated in autistic disorder. Orthologous to human TBR1 (T-box brain transcription factor 1).

Ensembl:

ensembl_id ENSDARG00000076259

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00007539 True 1805 mRNA 0.49 6 10812949 10828539

Neighbor

gene id symbol gene type direction distance location
XLOC_003930 slc4a10a coding downstream 14885 10669461 ~ 10798064 (-)
XLOC_003929 mcf2l2 coding downstream 149827 10467299 ~ 10663122 (-)
XLOC_003928 ect2 coding downstream 356396 10388303 ~ 10456553 (-)
XLOC_003927 NA coding downstream 484422 10305130 ~ 10328527 (-)
XLOC_003926 nlgn1 coding downstream 827534 9564154 ~ 9985415 (-)
XLOC_003932 psmd14 coding upstream 4021 10832560 ~ 10850936 (-)
XLOC_003933 CR678435.1 coding upstream 30485 10859024 ~ 10860106 (-)
XLOC_003934 lgsn coding upstream 434912 11263451 ~ 11266882 (-)
XLOC_003935 col9a1a coding upstream 446401 11274940 ~ 11301357 (-)
XLOC_003936 mrpl4 coding upstream 490602 11319141 ~ 11331146 (-)
XLOC_003938 BX324177.10 misc upstream 510265 11338804 ~ 11339100 (-)
XLOC_003942 BX324177.17 misc upstream 539055 11367594 ~ 11367890 (-)
XLOC_003943 BX324177.3 misc upstream 541916 11370455 ~ 11370653 (-)
XLOC_003944 BX324177.4 misc upstream 552365 11380904 ~ 11381204 (-)
XLOC_003945 BX324177.6 misc upstream 555294 11383833 ~ 11384130 (-)
XLOC_003922 NA non-coding downstream 1289765 8983651 ~ 9523184 (-)
XLOC_003939 NA non-coding upstream 514741 11343280 ~ 11343574 (-)
XLOC_003940 NA non-coding upstream 525435 11353974 ~ 11354268 (-)
XLOC_003941 NA non-coding upstream 528354 11356893 ~ 11357187 (-)
XLOC_003946 NA non-coding upstream 576057 11404596 ~ 11404890 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000056_01671336_01676525 NA coding CI01000056 null 1670905 ~ 1676630 (-)