XLOC_030491 (lhx1b)


Basic Information

Item Value
gene id XLOC_030491
gene name lhx1b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 56268436 ~ 56274174 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00059552
CGAGGTACCACTGGACATTACGCACAATTGACATGGGATCTATGTGATACGCTTTGAGTTTATtgatttgttatatattttataataagaaAGGCGTTTATGTTCAAGCGTTTCGAGTATTGGACATCCCGCGCGCGctgtataaatacaaaatatataataattaatcattCCAGGCGAGATTGAAATAAGACCTatactaaatagtttttttatccATCTTAATGATAAGCGATCAGCTTATGTTTAATCGTCTAATCAGGAGCCGACACTTGTCCGTTTGAGTGCTGTCATCTTCAAACTAAATTTGGAATGCTGTATTATATTCAATGCCTGCCTTTTTGATGACTTTTTGTTTACTTGGATCAAGGACCACATAGTGTTCTCCAACTTTTGGCACAAGTCATCCGATTTTTGCTTCTCACCAAGGACTGGAGTCTCAAAACATGGTCCACTGTGCTGGATGCGAGAGGCCTATTCTAGACAGATTTCTGCTGAGCGTCTTGGACAGAGCCTGGCATGCAAAATGCGTGCAATGCTGTGACTGTAAATGCAGTTTAACTGATAGATGTTTTTCTAGAGAAGGAAGGTTATACTGCAAAAACGACTTTTTCAGACGTTATGGCACTAAATGTGGAGGCTGCGCGCAGGGAATCTCGCCCAGTGATCTCGTTCGGAAAGCGCGAAGCAAAGTCTTTCACTTGAACTGTTTCACCTGCATTATGTGCAATAAACAGCTTTCCACCGGCGAAGAACTGTACATCCTAGATGAATATAAATTTGTCTGCAAGGAGGATTACTTGAATAACAGCAATGGAAAAGACACAAACCTTCTGTCAATTACCACCTGCAGTGACCCGAGCTTATCTCCAGAGTCTCAAGACCCACAGGATGATTACAAAGACTCTGAGAGTGGACCCATGTCAGACAAGGAGACCTGCAACAATGAAAATGACGAACAGAATCTGGGTGGCAAACGTCGCGGGCCTCGAACTACAATCAAAGCCAAGCAGCTGGAGACACTGAAAGCTGCTTTCGCCGCCACCCCCAAACCCACCAGACACATACGAGAGCAGCTGGCGCAGGAGACCGGCCTCAATATGCGCGTAATTCAGGTGTGGTTTCAGAATCGGCGCTCTAAAGAGAGGCGCATGAAGCAGCTGAGCGCACTGGGCGCCAGGAGACACATGTTCTTCCGCAGCCCGAGGAGAATGAGAGCACTGGGCGACCGAATGGAACCAGGAGAGCTCATGGCCAACGGACATTTCTCTTTTTATGGCGACTATCAAAGTGAATACTATGGCCCGGGGTCAAACTATGACTACTTCCCTCAGGGTCCACCGTCATCCCAAGCCCATACTCCAGGTGATCTAGGATTCATGCCCTCTTCTGGCCCAGCTGGAACGCCTCTAGGGAACATGGACCCCCATCACGGAGCACACCACCCCTCCAATGACACACAATGCTTTAGTGAGATGATATCACATCACCCTGGGGACTCTCCTAGTCCAGAGCCCAGCGCACCAGCCTCCATCCACAGCATCTCCACTGACATGTGTGACTCCACTCCACCCTTCACATCCCTGAACTCGCTCAGTGCCAACGGATACAGCAATCAACTGTCCTCAGAGATGAACGAGGGGACCGTCTGGTAGCAAAAAGGCAGACTTATTCAGGACAAAAACATGTGGATATGTACTATTcatctgtgatttttttataacaatggtATTTCTATCTAGGTAATTTATTGATATAACTGtctatttattcgttcatttggttactatttatttatttatttatatatatatttaagcgaCAATTGTGTATTTTGAAAGTGGAATGTCAAATGTGGGTCTGCAGACCTTATAGCTGTGCTATAGACAACGACagtttaaaaaaagctgaaacagAATGTTTATATTTACAACACCTGGTGTGTCTGTTCACATGTGTATCATAACCTGACCTCTTTGCCTTTTAAGGCTTTGCCATAATGACACTTGAAATCATCTCACACCAAAAGTTTTCTTTGCTCtccacactcttaaaaataaaggttccaaaAAGA

Function

symbol description
lhx1b Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in neuron differentiation and 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. Is expressed in margin. Orthologous to human LHX1 (LIM homeobox 1).

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:0030182 neuron differentiation 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: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-980526-116 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in neuron differentiation and 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. Is expressed in margin. Orthologous to human LHX1 (LIM homeobox 1).

Ensembl:

ensembl_id ENSDARG00000007944

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00059552 True 2074 mRNA 0.44 5 56268436 56274174

Neighbor

gene id symbol gene type direction distance location
XLOC_030490 BX255908.1 coding upstream 8606 56258431 ~ 56259830 (+)
XLOC_030489 CR753837.1 coding upstream 10270 56256188 ~ 56258166 (+)
XLOC_030488 CR753837.2 coding upstream 19701 56246736 ~ 56248735 (+)
XLOC_030487 NA coding upstream 82492 56184865 ~ 56185944 (+)
XLOC_030486 mrm1 coding upstream 142667 56119975 ~ 56125769 (+)
XLOC_030492 aatf coding downstream 3692 56277866 ~ 56306081 (+)
XLOC_030493 NA coding downstream 159478 56433652 ~ 56438669 (+)
XLOC_030494 NA coding downstream 200436 56474610 ~ 56525693 (+)
XLOC_030495 tmem232 coding downstream 691003 56965177 ~ 56997795 (+)
XLOC_030496 NA coding downstream 747414 57021588 ~ 57025500 (+)
XLOC_030485 NA non-coding upstream 174240 56093930 ~ 56094196 (+)
XLOC_030498 NA non-coding downstream 964544 57238718 ~ 57241553 (+)
XLOC_030502 NA non-coding downstream 1205840 57480014 ~ 57485614 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000059_01437393_01441869 LHX1B, LHX1 coding CI01000059 null 1436230 ~ 1443281 (+)