lhx3 (lhx3)


Basic Information

Item Value
gene id lhx3
gene name lhx3
gene type coding
species rainbow trout (Oncorhynchus mykiss)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_048569.1
NCBI id CM023223.2
chromosome length 100798064
location 32257928 ~ 32270782 (+)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_021602468.2
TCAGCTGACGCTGGTAATGGTCAGgcattatccccccccccccccctctctacctcctctggACCAACACACGGACTCAAACAGCAAGTCGCTGCATTCTCAAAGTTTCCTTGCAGGGTGACCGACGCAGAGACCAGGTCGACAGGCGTACTTTAGCCTCTTACAAACACGTTGTTTTTGTGACTCTCAAAGGATAAAGAAATAGGATCATGCGTTTTTATTTTTTCCTAATAATCACTTATCATTAGCCTAAGCTCAGTAGGCGCGCATCTTGCTTTCATTTCCTCTGTATAGGCAGGCCTATCTCAACCTCCGATTGATTGTATGTTCTTCTGAGCTGAAAAGCATCACTGCTCAGAATGTTGCTTGAACATCCTGGATCAAGTTGTCAAAATCCCGTGAATTTCTCCCGATACAGTGCAGGTCAAGAAATTCCTGTATGCGCTGGCTGTAATCAACACATCGTGGACCGCTTCATCCTCAAAGTGCTGGACCGCCATTGGCACAGCAAGTGCCTGAAATGCAGCGACTGCCAATCCCAACTAGCAGACAAGTGCTTCAGCCGGGGAGATAGCGTTTACTGCAAAGAAGACTTTTTTAAGAGATTTGGGACCAAATGCGCCGCGTGTCAGCAAGGTATTCCTCCAACGCAGGTGGTGAGAAGGGCACAGGATTTCGTATACCACCTGCACTGCTTCGCGTGCATCGTGTGCAAGAGGCAGCTCGCGACAGGTGACGAGTACTACCTGATGGAGGACAGCAGGCTCGTGTGCAAGGCTGACTACGAGACCGCCAAACAGCGAGAAGCTGACTCAACAGCGAAAAGGCCACGAACGACCATCACAGCGAAACAGCTCGAGACCCTGAAAAACGCTTACAACAACTCTCCCAAACCGGCCCGACACGTACGAGAACAGCTATCGTCAGAAACTGGCCTAGATATGCGGGTTGTTCAGGTCTGGTTTCAGAACAGGCGAGCAAAAGAGAAGAGGCTGAAGAAGGATGCAGGCAGACAGAGGTGGGGACAGTACTTCCGCAACATGAAGAGGTCGCGAGGTAGTTCCAAATCAGACAAGGACAGCATCCAGGAGGAGGGCATGGACAGCGACGCTGAGGTCTCCTTTACAGACGAGCCACCCATGTCGGAGCTCAGTCACTCCAATGGCATCTACAGCGGCCTGAGCGAGTCGTCTCCAGCCATGGGGGGCAGCCACGGCCCCTTCCCCCTGGAGCATGGAGTCCTCCCCTCTCAGGACCAGTACCGTGACATCCGCTCCAGCAGCCCCTACGGCCTACCCCAGTCCCCAGGTTCGCTTCAGGCACTGCCCAGGCACCAGCCCCTCATCTCCAGCCTGGTCTACCCTGACTCCGGCCTGTCAATCATGACCCAAGGTGGGGCCCCGGGGCTAAACCCAGGCATGAGAGGAGTGTTGGGGGGCACTAACGGCCCTAGCTCAGATCTGTCCACTGGCAGCAGTGGGGGCTACCCAGACTTCCCAGCGAGTCCAGCTTCCTGGTTGGATGAAGTGGACCACGGACAGTTTTGATGAGCTGGGTTGATTGGTCAACGTTGTCTAAGGACTCAAAGGTGTTTTTTCTGTGTCTTCTCCTGCGGGTGTCAAAAACTGGAAAGAGACAGTCACGCAAGACCTGTAAAACAGAGAGACCGGGTCAGACGGTTGCTGTCTTTCACCCTCCTtggatcactctctctctgtcaatgaaCTGTCAATTAATATTTTTAATTTCTCCTGATCTGAGTGAACTGAAAGGAAGGATTGGGCCtcaaaaaatatgaatagtagcACTTGGAACTCACACACCATTCCTTAAAGATAACAAGACTGAGAAGAATGGAGTGCTGGCCTGTTCTGAATGATCATTTAGCTACTGACGAAGTGTTGATACGTTGCTCAAATATCGTCAAGAGTAGGGTCTGAAAGGAAAGCAATCTCACTTCTACAATCTGAACTTGTAACGGTCAGACAGACATACTCCCTCTCTCAGCCTGAAGTCTTCACAGCACTCATCAAACAGCCCTCCACCATTGAACTATGTGTACAGCGACTTTCCACCATCATGCTTTCGATCCCTATGGTGTCATCAATATTACACCAGAGGAAGCTCACAGATACACACCATTTCCAGCTGTGATATCGTTGTGACAACTTAGCAAATTCAGACTTTTGCCCAATTGGATTTCAATAGACTCCAATCCTTTCCACCTTATTCTTCtctctgtttaaaaaaaagaaaaagaaagtgTACCGATGCAGGTTGTGGTTCAAGTCAGAGTTTTTATGTGTCTGGTTGTTGCCAAATGTCTGTGTATATTAAGGTTTATCATTGTGGAGAATTTATTTTTATACAACCCCTACGACAACATGAATACCACAGATATTAGGACTTTGTACATTGACGGCTAGGGATCTAGACAGGTTGTAGATGTCGCCTCCCACCGATAAGTAGAGGTCCAGTTACTTCTATGCATTTGTGTGTTCTCAGATGTATCttgtttgtttcattctattgAAATTTCCTGGGCATGCTGAAACCCAGGCTGGTGTACGTGTTTGTTTATGTGGAAGATGTTTTATGTCTTATTTATTCTCTCTGATGATGATTATGATTAAGTGATACAGGTCTTTAATAAATTTGTCAGCTAAATCCAAACTGA
>XM_021602467.2
AATATTAGAGTTGCATTCTGCCTTGTAAACTGCACATCAACCACAGAAATACAACAATCAAGGCCAGAATAAATTGTACAATAGCTACCTAAATAAAATTATGTACAGGCCTATTTGAATCTTCGATATCAGGCCATGTGTTGCGTATCCATAACATAAACTGTCCATTACCGGCAAATATTTGGAATGTCACTTTATTTAACTTAACTTGAACTTATTTCACTTACTGAATTTTCGAACTCGACCGTTTCAGCACTTCATTTAAGAAAATATGTGCCAGGTTCCATTTTCGTTTGCGTTTGATTATTTGTGTAGCTTCGGCTATATTATGGTCGTGATTCGATTTGAAATAGGCCTACACACTGTTTTAGAGAAACGTGCATGCAAAGTTCCATTTAAAACAACTTAGGCGACTTTTCGTGCtgtgaaaatatattttcataacATCATGCAAAATATGTTAGTGTAAATAAACCAGCTAAAGGTCAAATAGGAGCTTCTTgcaataaaattacatttaatagCATAGCCTATGCATCAACTAAACACACATGGCCGAAACCATAGTCAAATGTTATCTTGTTCCATTTTTCCTCCCTCCGAAGAGCACTTGGTACCCGCACCGTTTCCAAGTTTCTGATCGTTGATGATAATCTATCTCCCTGCTTTAACAGGCCAGTCGCTAGGGTAACCACGCGTTGTAATCCTGCGCAGTGCACATCACACTGGGACACAGCAAACTCAAGCGTATGCAGTCACACCGTGCGTGGAATTGTGGTATTCTTCCCTTGATATACTGCATAATATGGCGTTGTGAGTGATAGGTGCGCAGCTAGAACACAGAAATACAGTCGTTTTTCGTTATCGTGTGAggaaaacatgagcaatggatgGACATAATGAACAGAACTCTCCAAATGGAGCACCGAATAACACGGAGATGCTGTTTGCCTTGCTGGCCCAGAGCGAGGAATTACGTAAAGAAATTCCTGTATGCGCTGGCTGTAATCAACACATCGTGGACCGCTTCATCCTCAAAGTGCTGGACCGCCATTGGCACAGCAAGTGCCTGAAATGCAGCGACTGCCAATCCCAACTAGCAGACAAGTGCTTCAGCCGGGGAGATAGCGTTTACTGCAAAGAAGACTTTTTTAAATTTGGGACCAAATGCGCCGCGTGTCAGCAAGGTATTCCTCCAACGCAGGTGGTGAGAAGGGCACAGGATTTCGTATACCACCTGCACTGCTTCGCGTGCATCGTGTGCAAGAGGCAGCTCGCGACAGGTGACGAGTACTACCTGATGGAGGACAGCAGGCTCGTGTGCAAGGCTGACTACGAGACCGCCAAACAGCGAGAAGCTGACTCAACAGCGAAAAGGCCACGAACGACCATCACAGCGAAACAGCTCGAGACCCTGAAAAACGCTTACAACAACTCTCCCAAACCGGCCCGACACGTACGAGAACAGCTATCGTCAGAAACTGGCCTAGATATGCGGGTTGTTCAGGTCTGGTTTCAGAACAGGCGAGCAAAAGAGAAGAGGCTGAAGAAGGATGCAGGCAGACAGAGGTGGGGACAGTACTTCCGCAACATGAAGAGGTCGCGAGGTAGTTCCAAATCAGACAAGGACAGCATCCAGGAGGAGGGCATGGACAGCGACGCTGAGGTCTCCTTTACAGACGAGCCACCCATGTCGGAGCTCAGTCACTCCAATGGCATCTACAGCGGCCTGAGCGAGTCGTCTCCAGCCATGGGGGGCAGCCACGGCCCCTTCCCCCTGGAGCATGGAGTCCTCCCCTCTCAGGACCAGTACCGTGACATCCGCTCCAGCAGCCCCTACGGCCTACCCCAGTCCCCAGGTTCGCTTCAGGCACTGCCCAGGCACCAGCCCCTCATCTCCAGCCTGGTCTACCCTGACTCCGGCCTGTCAATCATGACCCAAGGTGGGGCCCCGGGGCTAAACCCAGGCATGAGAGGAGTGTTGGGGGGCACTAACGGCCCTAGCTCAGATCTGTCCACTGGCAGCAGTGGGGGCTACCCAGACTTCCCAGCGAGTCCAGCTTCCTGGTTGGATGAAGTGGACCACGGACAGTTTTGATGAGCTGGGTTGATTGGTCAACGTTGTCTAAGGACTCAAAGGTGTTTTTTCTGTGTCTTCTCCTGCGGGTGTCAAAAACTGGAAAGAGACAGTCACGCAAGACCTGTAAAACAGAGAGACCGGGTCAGACGGTTGCTGTCTTTCACCCTCCTtggatcactctctctctgtcaatgaaCTGTCAATTAATATTTTTAATTTCTCCTGATCTGAGTGAACTGAAAGGAAGGATTGGGCCtcaaaaaatatgaatagtagcACTTGGAACTCACACACCATTCCTTAAAGATAACAAGACTGAGAAGAATGGAGTGCTGGCCTGTTCTGAATGATCATTTAGCTACTGACGAAGTGTTGATACGTTGCTCAAATATCGTCAAGAGTAGGGTCTGAAAGGAAAGCAATCTCACTTCTACAATCTGAACTTGTAACGGTCAGACAGACATACTCCCTCTCTCAGCCTGAAGTCTTCACAGCACTCATCAAACAGCCCTCCACCATTGAACTATGTGTACAGCGACTTTCCACCATCATGCTTTCGATCCCTATGGTGTCATCAATATTACACCAGAGGAAGCTCACAGATACACACCATTTCCAGCTGTGATATCGTTGTGACAACTTAGCAAATTCAGACTTTTGCCCAATTGGATTTCAATAGACTCCAATCCTTTCCACCTTATTCTTCtctctgtttaaaaaaaagaaaaagaaagtgTACCGATGCAGGTTGTGGTTCAAGTCAGAGTTTTTATGTGTCTGGTTGTTGCCAAATGTCTGTGTATATTAAGGTTTATCATTGTGGAGAATTTATTTTTATACAACCCCTACGACAACATGAATACCACAGATATTAGGACTTTGTACATTGACGGCTAGGGATCTAGACAGGTTGTAGATGTCGCCTCCCACCGATAAGTAGAGGTCCAGTTACTTCTATGCATTTGTGTGTTCTCAGATGTATCttgtttgtttcattctattgAAATTTCCTGGGCATGCTGAAACCCAGGCTGGTGTACGTGTTTGTTTATGTGGAAGATGTTTTATGTCTTATTTATTCTCTCTGATGATGATTATGATTAAGTGATACAGGTCTTTAATAAATTTGTCAGCTAAATCCAAACTGA
>XM_021602466.2
TATTAGAGTTGCATTCTGCCTTGTAAACTGCACATCAACCACAGAAATACAACAATCAAGGCCAGAATAAATTGTACAATAGCTACCTAAATAAAATTATGTACAGGCCTATTTGAATCTTCGATATCAGGCCATGTGTTGCGTATCCATAACATAAACTGTCCATTACCGGCAAATATTTGGAATGTCACTTTATTTAACTTAACTTGAACTTATTTCACTTACTGAATTTTCGAACTCGACCGTTTCAGCACTTCATTTAAGAAAATATGTGCCAGGTTCCATTTTCGTTTGCGTTTGATTATTTGTGTAGCTTCGGCTATATTATGGTCGTGATTCGATTTGAAATAGGCCTACACACTGTTTTAGAGAAACGTGCATGCAAAGTTCCATTTAAAACAACTTAGGCGACTTTTCGTGCtgtgaaaatatattttcataacATCATGCAAAATATGTTAGTGTAAATAAACCAGCTAAAGGTCAAATAGGAGCTTCTTgcaataaaattacatttaatagCATAGCCTATGCATCAACTAAACACACATGGCCGAAACCATAGTCAAATGTTATCTTGTTCCATTTTTCCTCCCTCCGAAGAGCACTTGGTACCCGCACCGTTTCCAAGTTTCTGATCGTTGATGATAATCTATCTCCCTGCTTTAACAGGCCAGTCGCTAGGGTAACCACGCGTTGTAATCCTGCGCAGTGCACATCACACTGGGACACAGCAAACTCAAGCGTATGCAGTCACACCGTGCGTGGAATTGTGGTATTCTTCCCTTGATATACTGCATAATATGGCGTTGTGAGTGATAGGTGCGCAGCTAGAACACAGAAATACAGTCGTTTTTCGTTATCGTGTGAggaaaacatgagcaatggatgGACATAATGAACAGAACTCTCCAAATGGAGCACCGAATAACACGGAGATGCTGTTTGCCTTGCTGGCCCAGAGCGAGGAATTACGTAAAGAAATTCCTGTATGCGCTGGCTGTAATCAACACATCGTGGACCGCTTCATCCTCAAAGTGCTGGACCGCCATTGGCACAGCAAGTGCCTGAAATGCAGCGACTGCCAATCCCAACTAGCAGACAAGTGCTTCAGCCGGGGAGATAGCGTTTACTGCAAAGAAGACTTTTTTAAGAGATTTGGGACCAAATGCGCCGCGTGTCAGCAAGGTATTCCTCCAACGCAGGTGGTGAGAAGGGCACAGGATTTCGTATACCACCTGCACTGCTTCGCGTGCATCGTGTGCAAGAGGCAGCTCGCGACAGGTGACGAGTACTACCTGATGGAGGACAGCAGGCTCGTGTGCAAGGCTGACTACGAGACCGCCAAACAGCGAGAAGCTGACTCAACAGCGAAAAGGCCACGAACGACCATCACAGCGAAACAGCTCGAGACCCTGAAAAACGCTTACAACAACTCTCCCAAACCGGCCCGACACGTACGAGAACAGCTATCGTCAGAAACTGGCCTAGATATGCGGGTTGTTCAGGTCTGGTTTCAGAACAGGCGAGCAAAAGAGAAGAGGCTGAAGAAGGATGCAGGCAGACAGAGGTGGGGACAGTACTTCCGCAACATGAAGAGGTCGCGAGGTAGTTCCAAATCAGACAAGGACAGCATCCAGGAGGAGGGCATGGACAGCGACGCTGAGGTCTCCTTTACAGACGAGCCACCCATGTCGGAGCTCAGTCACTCCAATGGCATCTACAGCGGCCTGAGCGAGTCGTCTCCAGCCATGGGGGGCAGCCACGGCCCCTTCCCCCTGGAGCATGGAGTCCTCCCCTCTCAGGACCAGTACCGTGACATCCGCTCCAGCAGCCCCTACGGCCTACCCCAGTCCCCAGGTTCGCTTCAGGCACTGCCCAGGCACCAGCCCCTCATCTCCAGCCTGGTCTACCCTGACTCCGGCCTGTCAATCATGACCCAAGGTGGGGCCCCGGGGCTAAACCCAGGCATGAGAGGAGTGTTGGGGGGCACTAACGGCCCTAGCTCAGATCTGTCCACTGGCAGCAGTGGGGGCTACCCAGACTTCCCAGCGAGTCCAGCTTCCTGGTTGGATGAAGTGGACCACGGACAGTTTTGATGAGCTGGGTTGATTGGTCAACGTTGTCTAAGGACTCAAAGGTGTTTTTTCTGTGTCTTCTCCTGCGGGTGTCAAAAACTGGAAAGAGACAGTCACGCAAGACCTGTAAAACAGAGAGACCGGGTCAGACGGTTGCTGTCTTTCACCCTCCTtggatcactctctctctgtcaatgaaCTGTCAATTAATATTTTTAATTTCTCCTGATCTGAGTGAACTGAAAGGAAGGATTGGGCCtcaaaaaatatgaatagtagcACTTGGAACTCACACACCATTCCTTAAAGATAACAAGACTGAGAAGAATGGAGTGCTGGCCTGTTCTGAATGATCATTTAGCTACTGACGAAGTGTTGATACGTTGCTCAAATATCGTCAAGAGTAGGGTCTGAAAGGAAAGCAATCTCACTTCTACAATCTGAACTTGTAACGGTCAGACAGACATACTCCCTCTCTCAGCCTGAAGTCTTCACAGCACTCATCAAACAGCCCTCCACCATTGAACTATGTGTACAGCGACTTTCCACCATCATGCTTTCGATCCCTATGGTGTCATCAATATTACACCAGAGGAAGCTCACAGATACACACCATTTCCAGCTGTGATATCGTTGTGACAACTTAGCAAATTCAGACTTTTGCCCAATTGGATTTCAATAGACTCCAATCCTTTCCACCTTATTCTTCtctctgtttaaaaaaaagaaaaagaaagtgTACCGATGCAGGTTGTGGTTCAAGTCAGAGTTTTTATGTGTCTGGTTGTTGCCAAATGTCTGTGTATATTAAGGTTTATCATTGTGGAGAATTTATTTTTATACAACCCCTACGACAACATGAATACCACAGATATTAGGACTTTGTACATTGACGGCTAGGGATCTAGACAGGTTGTAGATGTCGCCTCCCACCGATAAGTAGAGGTCCAGTTACTTCTATGCATTTGTGTGTTCTCAGATGTATCttgtttgtttcattctattgAAATTTCCTGGGCATGCTGAAACCCAGGCTGGTGTACGTGTTTGTTTATGTGGAAGATGTTTTATGTCTTATTTATTCTCTCTGATGATGATTATGATTAAGTGATACAGGTCTTTAATAAATTTGTCAGCTAAATCCAAACTGA

Function

symbol description
lhx3 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within ventral spinal cord interneuron specification. Predicted to be active in nucleus. Is expressed in adenohypophyseal placode; nervous system; neural keel; and neural tube. Human ortholog(s) of this gene implicated in panhypopituitarism. Orthologous to human LHX3 (LIM homeobox 3).

NR:

description
PREDICTED: LIM/homeobox protein Lhx3 isoform X1

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:0003700 DNA-binding transcription factor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K09374 LHX3_4; LIM homeobox protein 3/4

RNA

RNA id representative length rna type GC content exon number start site end site
XM_021602468.2 False 2677 mRNA 0.48 6 32257928 32270782
XM_021602467.2 False 3228 mRNA 0.46 6 32260648 32270782
XM_021602466.2 True 3229 mRNA 0.46 6 32260650 32270782

Neighbor

gene id symbol gene type direction distance location
LOC110523608 NA coding upstream 97511 32152908 ~ 32160417 (+)
LOC110522913 LOC106565915 coding upstream 1285585 30966139 ~ 30975087 (+)
LOC110522910 LOC106565903 coding upstream 1402330 30741854 ~ 30856071 (+)
LOC110523597 LOC106565929 coding upstream 1546268 30674936 ~ 30711660 (+)
rgs3a LOC106565973 coding upstream 1761968 30339806 ~ 30495960 (+)
LOC110523612 LOC106565885 coding downstream 62720 32333502 ~ 32336514 (+)
LOC110523614 LOC106565718 coding downstream 70094 32340876 ~ 32390222 (+)
nup214 LOC106565702 coding downstream 133716 32404498 ~ 32485105 (+)
LOC110523616 LOC106565683 coding downstream 253799 32524581 ~ 32531600 (+)
prrc2b NA coding downstream 285299 32556081 ~ 32597277 (+)
G390396 NA non-coding upstream 33831 32223748 ~ 32224097 (+)
G390394 NA non-coding upstream 35493 32222227 ~ 32222435 (+)
G390389 NA non-coding upstream 42569 32214442 ~ 32215359 (+)
G390387 NA non-coding upstream 45110 32212619 ~ 32212818 (+)
G390382 LOC107744057 non-coding upstream 51261 32206250 ~ 32206667 (+)
G390446 NA non-coding downstream 33824 32304606 ~ 32304829 (+)
G390450 NA non-coding downstream 42355 32313137 ~ 32313362 (+)
G390610 NA non-coding downstream 47373 32318155 ~ 32318369 (+)
G390649 NA non-coding downstream 132044 32402826 ~ 32403113 (+)
G390393 NA other upstream 37395 32220181 ~ 32220533 (+)
G390184 NA other upstream 297183 31960355 ~ 31960745 (+)
G388019 NA other upstream 1970104 30286951 ~ 30287824 (+)
G387516 NA other upstream 2359794 29896986 ~ 29898134 (+)
tbx5a LOC106566939 other upstream 2511734 29741800 ~ 29763439 (+)
G391513 LOC100136561 other downstream 888044 33158826 ~ 33162980 (+)
G391805 NA other downstream 1090175 33360957 ~ 33361341 (+)
G392776 NA other downstream 1876692 34147474 ~ 34150795 (+)
G394882 NA other downstream 3634330 35905112 ~ 35905781 (+)
G394910 NA other downstream 3696155 35966937 ~ 36004829 (+)

Expression


Co-expression Network