LHX5 (LIM homeobox 5) - Rat Genome Database

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Gene: LHX5 (LIM homeobox 5) Sus scrofa
Analyze
Symbol: LHX5
Name: LIM homeobox 5
RGD ID: 14105000
Description: ENCODES a protein that exhibits sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN cell proliferation in forebrain (ortholog); cell-cell signaling (ortholog); cerebellar Purkinje cell differentiation (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: LIM/homeobox protein Lhx5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1438,446,730 - 38,457,177 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11438,446,781 - 38,456,460 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21440,911,815 - 40,920,132 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

Comparative Map Data
LHX5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1438,446,730 - 38,457,177 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11438,446,781 - 38,456,460 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21440,911,815 - 40,920,132 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LHX5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl12113,462,033 - 113,472,280 (-)EnsemblGRCh38hg38GRCh38
GRCh3812113,462,033 - 113,471,871 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3712113,899,838 - 113,909,676 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612112,385,077 - 112,394,260 (-)NCBINCBI36hg18NCBI36
Build 3412112,363,413 - 112,372,597NCBI
Celera12113,527,582 - 113,536,765 (-)NCBI
Cytogenetic Map12q24.13NCBI
HuRef12110,911,297 - 110,920,482 (-)NCBIHuRef
CHM1_112113,868,362 - 113,877,545 (-)NCBICHM1_1
Lhx5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395120,569,951 - 120,579,522 (+)NCBIGRCm39mm39
GRCm39 Ensembl5120,569,764 - 120,579,288 (+)Ensembl
GRCm385120,431,886 - 120,441,457 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5120,431,699 - 120,441,223 (+)EnsemblGRCm38mm10GRCm38
MGSCv375120,881,895 - 120,891,466 (+)NCBIGRCm37mm9NCBIm37
MGSCv365120,692,518 - 120,702,074 (+)NCBImm8
Celera5117,516,048 - 117,525,759 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map560.62NCBI
Lhx5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21236,126,186 - 36,134,625 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1236,126,186 - 36,134,625 (-)Ensembl
Rnor_6.01241,663,000 - 41,671,437 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1241,663,000 - 41,671,437 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01243,513,076 - 43,521,513 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41237,323,820 - 37,332,257 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11237,187,214 - 37,195,645 (-)NCBI
Celera1237,784,186 - 37,792,623 (-)NCBICelera
Cytogenetic Map12q16NCBI
Lhx5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554829,682,526 - 9,691,530 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554829,682,671 - 9,691,155 (-)NCBIChiLan1.0ChiLan1.0
LHX5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.112114,445,759 - 114,454,960 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12114,445,766 - 114,454,960 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v012111,063,466 - 111,075,445 (-)NCBIMhudiblu_PPA_v0panPan3
LHX5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12610,776,991 - 10,785,820 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2610,777,242 - 10,785,815 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2610,901,082 - 10,909,374 (-)NCBI
ROS_Cfam_1.02611,027,504 - 11,035,796 (-)NCBI
UMICH_Zoey_3.12610,996,951 - 11,005,243 (-)NCBI
UNSW_CanFamBas_1.02611,059,577 - 11,067,865 (-)NCBI
UU_Cfam_GSD_1.02611,108,837 - 11,117,131 (-)NCBI
Lhx5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118148,746,922 - 148,756,459 (-)NCBI
SpeTri2.0NW_0049366683,246,456 - 3,255,353 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LHX5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111108,718,452 - 108,727,156 (-)NCBI
ChlSab1.1 Ensembl11108,718,925 - 108,727,139 (-)Ensembl
Vero_WHO_p1.0NW_023666037136,366,070 - 136,376,140 (+)NCBI
Lhx5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474719,088,372 - 19,097,406 (+)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

endocrine system nervous system
High
Medium
Low 1 5
Below cutoff 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000010817   ⟹   ENSSSCP00000010534
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1438,446,730 - 38,457,177 (+)Ensembl
RefSeq Acc Id: XM_003132901   ⟹   XP_003132949
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11438,446,781 - 38,456,460 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003132949 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003132949   ⟸   XM_003132901
- Sequence:
RefSeq Acc Id: ENSSSCP00000010534   ⟸   ENSSSCT00000010817
Protein Domains
Homeobox   LIM zinc-binding


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000009869 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070009895 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000010534 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070015976 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000010817 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070019213 UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  Znf_LIM UniProtKB/TrEMBL
NCBI Gene LHX5 ENTREZGENE
Pfam Homeodomain 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 A0A4X1TJ13_PIG UniProtKB/TrEMBL
  F1RKD0_PIG UniProtKB/TrEMBL
VGNC ID VGNC:89715 ENTREZGENE