LHX3 (LIM homeobox 3) - Rat Genome Database
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Gene: LHX3 (LIM homeobox 3) Canis lupus familiaris
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Symbol: LHX3
Name: LIM homeobox 3
RGD ID: 12128191
Description: ENCODES a protein that exhibits DNA binding (ortholog); sequence-specific DNA binding (ortholog); INVOLVED IN cell differentiation (ortholog); dorsal/ventral pattern formation (ortholog); lung development (ortholog); ASSOCIATED WITH Adams-Oliver Syndrome 5 (ortholog); atrial fibrillation (ortholog); autosomal dominant non-syndromic intellectual disability 8 (ortholog); FOUND IN nucleus (ortholog); transcription regulator complex (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LIM homeodomain box protein 3; LIM/homeobox protein Lhx3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
NCBI Annotation Information: Annotation category: suggests misassembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl949,248,621 - 49,254,118 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1949,248,555 - 49,254,128 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:22132174   PMID:25273400   PMID:25586673  


Genomics

Comparative Map Data
LHX3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl949,248,621 - 49,254,118 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1949,248,555 - 49,254,128 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
LHX3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9136,196,250 - 136,205,128 (-)EnsemblGRCh38hg38GRCh38
GRCh389136,196,250 - 136,205,128 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh379139,088,096 - 139,096,974 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh379139,088,096 - 139,096,955 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369138,227,917 - 138,236,776 (-)NCBINCBI36hg18NCBI36
Build 349136,314,040 - 136,322,900NCBI
Celera9109,606,466 - 109,615,325 (-)NCBI
Cytogenetic Map9q34.3NCBI
HuRef9108,552,281 - 108,560,958 (-)NCBIHuRef
CHM1_19139,236,859 - 139,245,738 (-)NCBICHM1_1
Lhx3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39226,090,224 - 26,098,261 (-)NCBIGRCm39mm39
GRCm38226,200,212 - 26,208,249 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl226,200,212 - 26,208,289 (-)EnsemblGRCm38mm10GRCm38
MGSCv37226,055,732 - 26,062,076 (-)NCBIGRCm37mm9NCBIm37
MGSCv36226,022,956 - 26,030,258 (-)NCBImm8
Celera225,922,727 - 25,929,069 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map218.44NCBI
Lhx3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.239,026,432 - 9,035,122 (-)NCBI
Rnor_6.0 Ensembl33,654,755 - 3,661,810 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.033,653,861 - 3,662,509 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.039,015,656 - 9,023,734 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.434,381,890 - 4,389,132 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.134,387,210 - 4,387,304 (-)NCBI
Celera33,849,012 - 3,855,303 (-)NCBICelera
Cytogenetic Map3p13NCBI
Lhx3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,464,149 - 4,470,962 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555134,464,149 - 4,470,962 (+)NCBIChiLan1.0ChiLan1.0
LHX3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19136,252,974 - 136,260,366 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9136,252,880 - 136,260,366 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09107,271,131 - 107,280,001 (-)NCBIMhudiblu_PPA_v0panPan3
Lhx3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366691,561,433 - 1,573,074 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LHX3
(Sus scrofa - pig)
No map positions available.
LHX3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,997,437 - 2,007,473 (+)NCBI
ChlSab1.1 Ensembl122,000,638 - 2,006,430 (+)Ensembl
Lhx3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247601,428,496 - 1,435,414 (-)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system hemolymphoid system integumental system musculoskeletal system nervous system reproductive system adipose tissue
High
Medium 6 6
Low 1 1 2
Below cutoff 3 3 1 3 2 6 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000020228   ⟹   ENSCAFP00000018765
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl949,248,621 - 49,254,118 (+)Ensembl
RefSeq Acc Id: NM_001197187   ⟹   NP_001184116
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1949,248,621 - 49,254,128 (+)NCBI
Sequence:
RefSeq Acc Id: XM_022422603   ⟹   XP_022278311
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1949,248,555 - 49,254,128 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001184116 (Get FASTA)   NCBI Sequence Viewer  
  XP_038531020 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ADK38611 (Get FASTA)   NCBI Sequence Viewer  
  ADK38612 (Get FASTA)   NCBI Sequence Viewer  
  ADO00272 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001184116   ⟸   NM_001197187
- UniProtKB: E0X4D7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022278311   ⟸   XM_022422603
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSCAFP00000018765   ⟸   ENSCAFT00000020228
Protein Domains
Homeobox   LIM zinc-binding


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000019695 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000018765 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000020228 ENTREZGENE, UniProtKB/TrEMBL
InterPro Homeobox-like UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  Znf_LIM UniProtKB/TrEMBL
KEGG Report cfa:607584 UniProtKB/TrEMBL
NCBI Gene LHX3 ENTREZGENE
Pfam Homeobox UniProtKB/TrEMBL
  LIM UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
  LIM_DOMAIN_1 UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
  LIM UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt E0X4D6_CANLF UniProtKB/TrEMBL
  E0X4D7 ENTREZGENE, UniProtKB/TrEMBL
  G3BKG0_CANLF UniProtKB/TrEMBL
  L7N0D8_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:42664 ENTREZGENE