XLOC_009601 (irx1a)


Basic Information

Item Value
gene id XLOC_009601
gene name irx1a
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 813780 ~ 817937 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00019295
ATGTCTTTCCCCCAGCTGGGCTACCCGCAGTATTTAAGTGCCTCCCAGGCGGTGTACGGAGGCGACCGACCGGGAGTTCTGACTCCGTCGTCCCGCGCAGGGAGCGCTGAGATCGGGGGTAGCGCGTCTGCGGCCGCCGCTGCGGTGTCCTCGGTGTTGGGCATGTACCCGTACGCACACAACTACAGCGCCTTTCTGCCTTACACCAGCGCCGATCTGGCTCTTTTCTCCCAAATGGGCTCTCAGTATGATCTGAAAGACAGCCCTGGAGTCCACCCTGCCAGCTTCGCTGCCCACACGAGTCCTGCCTTCTACCCCTACGGCCAGTTCCAGTACGGAGACCCCGCCAGGCCCAAAAACGCCACCCGGGAGAGCACCAGCACCCTGAAGGCCTGGCTGAACGAGCACAGGAAAAACCCCTATCCCACCAAAGGAGAGAAGATCATGCTGGCCATCATCACCAAGATGACCCTCACGCAAGTGTCCACCTGGTTCGCCAACGCTAGAAGGAGACTCAAGAAGGAGAACAAGGTGACCTGGGGCGCCAGGAGCAAGGACGACGAGAACATTTTTGGAAGCGATAACGAAGGAGACGCCGAAAAGAACGAGGACGAAGAGGAGATAGATCTGGAGAGCATAGATATCGATAAAATCGACGACAACGATGGCGATCAGAGCAACGAGGAGGACGAGGACAAGCGCGCGGAGCTGGAGAGCCTCCAGGAGAAGCGACACGCGTCCAAAGAGCCGTCGGATGGCAACAACAACACCACTAGAGTACTGTCGCCCGGTCGACAGGGCGGTTTTCAAGTTCCGGTTAGCAATAAGCCCAAAATATGGTCGTTGGCAGAAACAGCGACCAGTCCCGATAGCGCGCAGAAACCTACGTCACCTTCCGTTCCCGTCAGCCACCCGGCCTTCCTGCCCAGCCACGGACTGTACACGTGCCAGATCGGCAAGTTCCACAACTGGACGAACGGCGCGTTTCTGGGACAAAACTCTCTGCTAAATGTGCGCTCTTTCCTGGGCGTCAACCAGCACAACCACCCggcgcagcagcagcagcagcagacggGGCCCGCGTCCCTGCAGGTGCTGTCGGCCGGGAACACGGACAAGATGCCGGAGGACCTGAGTCCAAAACACATAGATCGGGAAAATGTCCTCAGAAATGAATCACCAACGCAACCTTTAAAGTCGTCGTTTCGTCCTCTTCATGACAGTCCCAGAAACCAGCAGGAATCAACACAGAGGGTCCTCACAGCGCTGTCCTCCGCTTGATCAACACATTTGCACCCCCAAAAGGACTGATGGCACTAATAATGGACACTGAAAGCGAAATCAATTCAGCGTAGCGTTGAGTCTCTCTAAAACAACCGGCCGCTGGAGTTGTACATAATGACACCTGTGATCCCTCCCTTACCGTGGGACATTGGTAGGCGTACTTTGTCTTTATGTGTTGGTGTTTTCCTTTAAGGTGACCCACCATTTGTAAATAGCGAGTTGACGGAGTTTGTCCAGATCATATATTTTGTCTAATAAACTAAATGAAATTATAGACACATTCATTCAGAGCTCTCTTTTTGTGGTTTGGATCGTTTGTAAAgaggaaaactttttttatttggtttttataattattttattattattattattattattattattattattattattattattattattattctcaaaaCAGATATGAACAAACCACGTTTGGG
>TCONS_00019294
ATGTCTTTCCCCCAGCTGGGCTACCCGCAGTATTTAAGTGCCTCCCAGGCGGTGTACGGAGGCGACCGACCGGGAGTTCTGACTCCGTCGTCCCGCGCAGGGAGCGCTGAGATCGGGGGTAGCGCGTCTGCGGCCGCCGCTGCGGTGTCCTCGGTGTTGGGCATGTACCCGTACGCACACAACTACAGCGCCTTTCTGCCTTACACCAGCGCCGATCTGGCTCTTTTCTCCCAAATGGGCTCTCAGTATGATCTGAAAGACAGCCCTGGAGTCCACCCTGCCAGCTTCGCTGCCCACACGAGTCCTGCCTTCTACCCCTACGGCCAGTTCCAGTACGGAGACCCCGCCAGGCCCAAAAACGCCACCCGGGAGAGCACCAGCACCCTGAAGGCCTGGCTGAACGAGCACAGGAAAAACCCCTATCCCACCAAAGGAGAGAAGATCATGCTGGCCATCATCACCAAGATGACCCTCACGCAAGTGTCCACCTGGTTCGCCAACGCTAGAAGGAGACTCAAGAAGGAGAACAAGGTGACCTGGGGCGCCAGGAGCAAGGACGACGAGAACATTTTTGGAAGCGATAACGAAGGAGACGCCGAAAAGAACGAGGACGAAGAGGAGATAGATCTGGAGAGCATAGATATCGATAAAATCGACGACAACGATGGCGATCAGAGCAACGAGGAGGACGAGGACAAGCGCGCGGAGCTGGAGAGCCTCCAGGAGAAGCGACACGCGTCCAAAGAGCCGTCGGATGGCAACAACAACACCACTAGAGTACTGTCGCCCGGTCGACAGGGCGGTTTTCAAGTTCCGGTTAGCAATAAGCCCAAAATATGGTCGTTGGCAGAAACAGCGACCAGTCCCGATAGCGCGCAGAAACCTACGTCACCTTCCGTTCCCGTCAGCCACCCGGCCTTCCTGCCCAGCCACGGACTGTACACGTGCCAGATCGGCAAGTTCCACAACTGGACGAACGGCGCGTTTCTGGGACAAAACTCTCTGCTAAATGTGCGCTCTTTCCTGGGCGTCAACCAGCACAACCACCCggcgcagcagcagcagcagcagacggGGCCCGCGTCCCTGCAGGTGCTGTCGGCCGGGAACACGGACAAGATGCCGGAGGACCTGAGTCCAAAACACATAGTCCCAGAAACCAGCAGGAATCAACACAGAGGGTCCTCACAGCGCTGTCCTCCGCTTGATCAACACATTTGCACCCCCAAAAGGACTGATGGCACTAATAATGGACACTGAAAGCGAAATCAATTCAGCGTAGCGTTGAGTCTCTCTAAAACAACCGGCCGCTGGAGTTGTACATAATGACACCTGTGATCCCTCCCTTACCGTGGGACATTGGTAGGCGTACTTTGTCTTTATGTGTTGGTGTTTTCCTTTAAGGTGACCCACCATTTGTAAATAGCGAGTTGACGGAGTTTGTCCAGATCATATATTTTGTCTAATAAACTAAATGAAATTATAGACACATTCATTCAGAGCTCTCTTTTTGTGGTTTGGATCGTTTGTAAAgaggaaaactttttttatttggtttttataattattttattattattattattattattattattattattattattattattattattattctcaaaaCAGATATGAACAAACCACGTTTGGG

Function

symbol description
irx1a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within central nervous system neuron differentiation; embryonic pectoral fin morphogenesis; and sensory organ development. Predicted to be active in nucleus. Is expressed in several structures, including liver; nervous system; neural plate; pericardial region; and pleuroperitoneal region. Orthologous to human IRX1 (iroquois homeobox 1).

GO:

id name namespace
GO:0048468 cell development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0042462 eye photoreceptor cell development biological_process
GO:0030182 neuron differentiation biological_process
GO:0042472 inner ear morphogenesis biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0031076 embryonic camera-type eye development biological_process
GO:0035118 embryonic pectoral fin morphogenesis biological_process
GO:0021953 central nervous system neuron differentiation biological_process
GO:0007399 nervous system development biological_process
GO:0007417 central nervous system development biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0060042 retina morphogenesis in camera-type eye biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0001227 DNA-binding transcription repressor activity, RNA polymerase II-specific molecular_function
GO:0003677 DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040707-1 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within central nervous system neuron differentiation; embryonic pectoral fin morphogenesis; and sensory organ development. Predicted to be active in nucleus. Is expressed in several structures, including liver; nervous system; neural plate; pericardial region; and pleuroperitoneal region. Orthologous to human IRX1 (iroquois homeobox 1).

Ensembl:

ensembl_id ENSDARG00000101831

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00019295 False 1730 mRNA 0.52 4 813780 817937
TCONS_00019294 True 1657 mRNA 0.52 3 813780 817937

Neighbor

gene id symbol gene type direction distance location
XLOC_009600 NA coding upstream 170871 616213 ~ 642909 (+)
XLOC_009598 LO017841.1 coding upstream 300622 420122 ~ 513158 (+)
XLOC_009599 NA coding upstream 356305 432970 ~ 457475 (+)
XLOC_009597 nrsn1 coding upstream 584298 221739 ~ 229482 (+)
XLOC_009596 NA coding upstream 622805 186574 ~ 190975 (+)
XLOC_009602 NA coding downstream 214638 1032575 ~ 1035953 (+)
XLOC_009603 adamts16 coding downstream 282622 1100559 ~ 1176503 (+)
XLOC_009604 rprd2b coding downstream 381265 1199202 ~ 1211162 (+)
XLOC_009605 LO017852.3 coding downstream 394737 1212674 ~ 1212788 (+)
XLOC_009606 LO017852.2 coding downstream 402509 1220446 ~ 1220562 (+)
XLOC_009594 NA non-coding upstream 684754 127435 ~ 129026 (+)
XLOC_009611 NA non-coding downstream 902822 1720759 ~ 1721414 (+)
XLOC_009612 CABZ01085979.1 non-coding downstream 923000 1740937 ~ 1741058 (+)

Expression


Co-expression Network