Lhx6 (LIM homeobox protein 6) - Rat Genome Database

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Gene: Lhx6 (LIM homeobox protein 6) Mus musculus
Analyze
Symbol: Lhx6
Name: LIM homeobox protein 6
RGD ID: 1314643
MGI Page MGI
Description: 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 forebrain development and neuron maturation. Located in nucleus. Is expressed in several structures, including alimentary system; branchial arch; forebrain; genitourinary system; and sensory organ. Orthologous to human LHX6 (LIM homeobox 6).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Lhx6.1; LIM-homeodomain protein 6.1; LIM/homeobox protein Lhx6; LIM/homeobox protein Lhx6.1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39235,971,962 - 35,996,004 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl235,971,965 - 35,995,420 (-)EnsemblGRCm39 Ensembl
GRCm38236,081,950 - 36,105,992 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl236,081,953 - 36,105,408 (-)EnsemblGRCm38mm10GRCm38
MGSCv37235,937,473 - 35,960,928 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36235,905,548 - 35,927,280 (-)NCBIMGSCv36mm8
Celera235,785,674 - 35,809,139 (-)NCBICelera
Cytogenetic Map2BNCBI
cM Map224.17NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IBA,IDA,ISO)

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Expression of the guanine nucleotide exchange factor, mr-gef, is regulated during the differentiation of specific subsets of telencephalic neurons. Bithell A, etal., Brain Res Dev Brain Res 2003 Dec 19;146(1-2):107-18.
2. Combinatorial function of the homeodomain proteins Nkx2.1 and Gsh2 in ventral telencephalic patterning. Corbin JG, etal., Development 2003 Oct;130(20):4895-906. Epub 2003 Aug 20.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. MGD IEA MGD IEA
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9570771   PMID:9834185   PMID:10349636   PMID:10393115   PMID:10393337   PMID:10479690   PMID:10601039   PMID:10640277   PMID:10934256   PMID:11042159   PMID:11050125   PMID:11076861  
PMID:11152634   PMID:11217851   PMID:11566859   PMID:11859196   PMID:12086327   PMID:12118260   PMID:12379852   PMID:12411960   PMID:12466851   PMID:12477932   PMID:12642493   PMID:12724834  
PMID:12764029   PMID:12810588   PMID:12855770   PMID:12902388   PMID:14586460   PMID:14623826   PMID:14681479   PMID:15201337   PMID:15217369   PMID:15295034   PMID:15371303   PMID:15473965  
PMID:15618518   PMID:15748846   PMID:15878992   PMID:15936012   PMID:15944132   PMID:16007083   PMID:16141072   PMID:16141073   PMID:16221724   PMID:16225856   PMID:16356785   PMID:16602821  
PMID:16615895   PMID:16766712   PMID:16766714   PMID:16807322   PMID:16819978   PMID:17151600   PMID:17182777   PMID:17376969   PMID:17409253   PMID:17460091   PMID:17462911   PMID:17493606  
PMID:17507568   PMID:17582329   PMID:17586487   PMID:17634386   PMID:17678855   PMID:17694053   PMID:17804629   PMID:17928865   PMID:17964566   PMID:17990271   PMID:18272682   PMID:18287559  
PMID:18329011   PMID:18339674   PMID:18367596   PMID:18572160   PMID:18613121   PMID:18662335   PMID:18786357   PMID:19020049   PMID:19030180   PMID:19037081   PMID:19304889   PMID:19386638  
PMID:19549840   PMID:19591819   PMID:19632216   PMID:19657336   PMID:19709629   PMID:19806666   PMID:19855026   PMID:20096683   PMID:20151419   PMID:20181579   PMID:20392955   PMID:20436479  
PMID:20436929   PMID:20495559   PMID:20501333   PMID:20507551   PMID:20639873   PMID:20681075   PMID:20713502   PMID:20713522   PMID:20932939   PMID:21048141   PMID:21150899   PMID:21205786  
PMID:21220099   PMID:21220100   PMID:21267068   PMID:21338885   PMID:21368052   PMID:21430164   PMID:21435555   PMID:21452208   PMID:21658586   PMID:21677750   PMID:21690261   PMID:21766338  
PMID:21873635   PMID:21943598   PMID:22090484   PMID:22098391   PMID:22103416   PMID:22238109   PMID:22248045   PMID:22315402   PMID:22435649   PMID:22623674   PMID:22710612   PMID:22711520  
PMID:22832508   PMID:22972697   PMID:23022035   PMID:23042297   PMID:23142661   PMID:23193182   PMID:23229549   PMID:23312517   PMID:23312518   PMID:23415800   PMID:23519094   PMID:23595746  
PMID:23622063   PMID:23754753   PMID:23826333   PMID:23861058   PMID:24101523   PMID:24154525   PMID:24155296   PMID:24157949   PMID:24194600   PMID:24333658   PMID:24451661   PMID:24507192  
PMID:24626607   PMID:24718993   PMID:24742460   PMID:24899708   PMID:24952961   PMID:24993945   PMID:25071457   PMID:25085881   PMID:25100946   PMID:25116473   PMID:25467980   PMID:25535916  
PMID:25631876   PMID:25875176   PMID:25975775   PMID:26071365   PMID:26129710   PMID:26148970   PMID:26166575   PMID:26305926   PMID:26319231   PMID:26400936   PMID:26620267   PMID:26659141  
PMID:26671461   PMID:26969076   PMID:27657450   PMID:27710791   PMID:27847324   PMID:27935475   PMID:28147272   PMID:28483978   PMID:28694260   PMID:28813670   PMID:28847002   PMID:29086765  
PMID:29117290   PMID:29444425   PMID:29474907   PMID:29878134   PMID:29901792   PMID:30063881   PMID:30315415   PMID:30377227   PMID:30571765   PMID:30635555   PMID:30638444   PMID:30659230  
PMID:30699346   PMID:30726732   PMID:30843579   PMID:30868103   PMID:31376504   PMID:31676717   PMID:32123116   PMID:32537777   PMID:32708917   PMID:33462220   PMID:33475140   PMID:33479483  
PMID:33492553   PMID:33503438   PMID:33596195   PMID:33739968   PMID:33821423   PMID:34321999   PMID:34851821   PMID:34861428   PMID:35127681   PMID:35175194   PMID:35318414   PMID:35544642  
PMID:35830795   PMID:35926459   PMID:35974052   PMID:36064547   PMID:36744839   PMID:36819097   PMID:37196079   PMID:37254876   PMID:37311798   PMID:37532091   PMID:37566909   PMID:37684687  
PMID:37759737   PMID:37770578   PMID:38355793   PMID:38755010   PMID:39438838  


Genomics

Comparative Map Data
Lhx6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39235,971,962 - 35,996,004 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl235,971,965 - 35,995,420 (-)EnsemblGRCm39 Ensembl
GRCm38236,081,950 - 36,105,992 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl236,081,953 - 36,105,408 (-)EnsemblGRCm38mm10GRCm38
MGSCv37235,937,473 - 35,960,928 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36235,905,548 - 35,927,280 (-)NCBIMGSCv36mm8
Celera235,785,674 - 35,809,139 (-)NCBICelera
Cytogenetic Map2BNCBI
cM Map224.17NCBI
LHX6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389122,202,582 - 122,228,957 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9122,202,577 - 122,229,626 (-)EnsemblGRCh38hg38GRCh38
GRCh379124,964,861 - 124,991,236 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369124,004,679 - 124,030,840 (-)NCBINCBI36Build 36hg18NCBI36
Celera995,613,158 - 95,639,326 (-)NCBICelera
Cytogenetic Map9q33.2NCBI
HuRef994,579,638 - 94,605,760 (-)NCBIHuRef
CHM1_19125,112,910 - 125,139,147 (-)NCBICHM1_1
T2T-CHM13v2.09134,400,069 - 134,426,451 (-)NCBIT2T-CHM13v2.0
Lhx6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8339,829,846 - 39,853,681 (-)NCBIGRCr8
mRatBN7.2319,432,439 - 19,456,268 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl319,433,494 - 19,456,061 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx322,510,924 - 22,534,512 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0331,095,849 - 31,119,442 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0329,343,118 - 29,366,747 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0315,409,349 - 15,433,504 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl315,411,939 - 15,433,252 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0320,718,972 - 20,742,583 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4315,192,524 - 15,216,076 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1315,088,870 - 15,113,701 (-)NCBI
Celera314,144,852 - 14,168,405 (-)NCBICelera
Cytogenetic Map3p11NCBI
Lhx6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554195,834,547 - 5,858,113 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554195,835,230 - 5,858,096 (+)NCBIChiLan1.0ChiLan1.0
LHX6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21117,117,476 - 17,172,379 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1917,119,825 - 17,174,732 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0993,303,447 - 93,353,896 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19121,668,585 - 121,693,605 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9121,670,707 - 121,694,378 (-)Ensemblpanpan1.1panPan2
LHX6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1960,348,529 - 60,374,037 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl960,348,335 - 60,374,024 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha959,543,996 - 59,581,491 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0961,263,724 - 61,301,199 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl961,263,679 - 61,289,115 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1960,037,892 - 60,075,327 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0960,354,214 - 60,391,774 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0960,442,894 - 60,480,404 (+)NCBIUU_Cfam_GSD_1.0
Lhx6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947190,823,007 - 190,847,434 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648710,591,532 - 10,616,017 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648710,591,532 - 10,616,017 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LHX6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1262,295,353 - 262,322,530 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11262,297,557 - 262,322,777 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21294,597,333 - 294,622,577 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LHX6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11217,364,693 - 17,392,756 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1217,366,826 - 17,386,276 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603525,656,604 - 25,683,197 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lhx6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476013,066,703 - 13,097,468 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476013,066,632 - 13,092,006 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:6409
Count of miRNA genes:741
Interacting mature miRNAs:1049
Transcripts:ENSMUST00000112960, ENSMUST00000112961, ENSMUST00000112963, ENSMUST00000112966, ENSMUST00000112967, ENSMUST00000136821, ENSMUST00000137436, ENSMUST00000148852
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212953766556453Mouse
12904005Cfq2_mconditioned fear QTL 2 (mouse)22702264256396228Mouse
14746979Manh51_mmandible shape 51 (mouse)22896112962961129Mouse
1300624Insq7_minsulin QTL 7 (mouse)Not determined2938444643384575Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220897778118894840Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
4142133Pbwg1.6_mpostnatal body weight growth 1.6 (mouse)Not determined3579732469797406Mouse
4141236Hbnr5_mHeligmosomoides bakeri nematode resistance 5 (mouse)Not determined31214567105143570Mouse
26884438Sklq12_mskull length QTL 12, 16 week (mouse)22459001254890012Mouse
12904008Cfq6_mconditioned fear QTL 6 (mouse)23120303544508204Mouse
1301790Pcfm1_mperiosteal circumference and femur length 1 (mouse)Not determined2823629642236396Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224224632148700377Mouse
4142130Pgis2_mproteoglycan induced spondylitis 2 (mouse)Not determined22530805156971811Mouse
1559001Eae33_mexperimental allergic encephalomyelitis susceptibility 33 (mouse)Not determined23599167971609412Mouse
1301980Fcsa5_mfemoral cross-sectional area 5 (mouse)Not determined2767911541679261Mouse
4142447Pbwg1.7_mpostnatal body weight growth 1.7 (mouse)Not determined3579732469797406Mouse
1301376Etohc1_methanol consumption 1 (mouse)Not determined22112972555129871Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
14746997Mancz2_mmandible centroid size 2 (mouse)22896112962961129Mouse
12792980Fbmd1_mfemoral bone mineral density 1, females only (mouse)22503449245034492Mouse
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388712693421651Mouse
1301641Sbmd2_mspinal bone mineral density 2 (mouse)Not determined21421456748214713Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220897778118894840Mouse
10755513Amzn4_manatomical modifier of Zfp423 4 (mouse)2938444643384575Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220897778118894840Mouse
4141854T2dm2sa_mtype 2 diabetes mellitus 2 in SMXA RI mice (mouse)Not determined229307947148374934Mouse
13463470Tubisq1_mtubulointerstitial injury severity, QTL 1 (mouse)22368914557689269Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220897778118894840Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220897778118894840Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220897778118894840Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220897778118894840Mouse
13464253Ifvrq1_minfluenza virus resistance QTL 1 (mouse)23303449252034492Mouse
1300577Capsq1_mcapsaicin sensitivity related QTL 1 (mouse)Not determined22760206084013384Mouse
4141708Pbwg1.2_mpostnatal body weight growth 1.2 (mouse)Not determined2112972555129871Mouse
10043876Adip22_madiposity 22 (mouse)Not determined2830805142308240Mouse
4141186Pbwg1.8_mpostnatal body weight growth 1.8 (mouse)Not determined3579732469797406Mouse

Markers in Region
D2Mit372  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38236,101,667 - 36,101,785UniSTSGRCm38
MGSCv37235,957,187 - 35,957,305UniSTSGRCm37
Celera235,805,402 - 35,805,516UniSTS
Cytogenetic Map2BUniSTS
cM Map227.3UniSTS
Whitehead Genetic227.3UniSTS
Whitehead/MRC_RH2663.19UniSTS
Whitehead_YAC2 UniSTS
Lhx6  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map2BUniSTS
cM Map2 UniSTS
AJ000337  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38236,083,607 - 36,083,710UniSTSGRCm38
MGSCv37235,939,127 - 35,939,230UniSTSGRCm37
Celera235,787,329 - 35,787,432UniSTS
Cytogenetic Map2BUniSTS
Whitehead/MRC_RH2663.19UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001083125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001083126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001083127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001355125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_008500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006497744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_374064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB031039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB031040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ000337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK090339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK140987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK149585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL773525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC065077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466542 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO042780 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000112960   ⟹   ENSMUSP00000108584
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,971,965 - 35,995,283 (-)Ensembl
GRCm38.p6 Ensembl236,081,953 - 36,105,271 (-)Ensembl
Ensembl Acc Id: ENSMUST00000112961   ⟹   ENSMUSP00000108585
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,971,965 - 35,994,072 (-)Ensembl
GRCm38.p6 Ensembl236,081,953 - 36,104,060 (-)Ensembl
Ensembl Acc Id: ENSMUST00000112963   ⟹   ENSMUSP00000108587
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,971,966 - 35,995,420 (-)Ensembl
GRCm38.p6 Ensembl236,081,954 - 36,105,408 (-)Ensembl
Ensembl Acc Id: ENSMUST00000112966   ⟹   ENSMUSP00000108590
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,971,965 - 35,994,072 (-)Ensembl
GRCm38.p6 Ensembl236,081,953 - 36,104,060 (-)Ensembl
Ensembl Acc Id: ENSMUST00000112967   ⟹   ENSMUSP00000108591
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,971,965 - 35,995,420 (-)Ensembl
GRCm38.p6 Ensembl236,081,953 - 36,105,408 (-)Ensembl
Ensembl Acc Id: ENSMUST00000136821   ⟹   ENSMUSP00000135776
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,973,696 - 35,984,285 (-)Ensembl
GRCm38.p6 Ensembl236,083,684 - 36,094,273 (-)Ensembl
Ensembl Acc Id: ENSMUST00000137436
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,991,335 - 35,995,267 (-)Ensembl
GRCm38.p6 Ensembl236,101,323 - 36,105,255 (-)Ensembl
Ensembl Acc Id: ENSMUST00000148852   ⟹   ENSMUSP00000135693
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,973,699 - 35,994,903 (-)Ensembl
GRCm38.p6 Ensembl236,083,687 - 36,104,891 (-)Ensembl
Ensembl Acc Id: ENSMUST00000187180
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl235,984,237 - 35,993,604 (-)Ensembl
GRCm38.p6 Ensembl236,094,225 - 36,103,592 (-)Ensembl
RefSeq Acc Id: NM_001083125   ⟹   NP_001076594
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39235,971,965 - 35,995,420 (-)NCBI
GRCm38236,081,953 - 36,105,408 (-)NCBI
MGSCv37235,937,473 - 35,960,928 (-)RGD
Celera235,785,674 - 35,809,139 (-)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001083126   ⟹   NP_001076595
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39235,971,965 - 35,994,072 (-)NCBI
GRCm38236,081,953 - 36,104,060 (-)NCBI
MGSCv37235,937,473 - 35,960,928 (-)RGD
Celera235,785,674 - 35,809,139 (-)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001083127   ⟹   NP_001076596
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39235,971,965 - 35,994,072 (-)NCBI
GRCm38236,081,953 - 36,104,060 (-)NCBI
MGSCv37235,937,473 - 35,960,928 (-)RGD
Celera235,785,674 - 35,809,139 (-)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001355125   ⟹   NP_001342054
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39235,971,965 - 35,994,545 (-)NCBI
GRCm38236,081,953 - 36,104,533 (-)NCBI
Sequence:
RefSeq Acc Id: NM_008500   ⟹   NP_032526
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39235,971,965 - 35,995,420 (-)NCBI
GRCm38236,081,953 - 36,105,408 (-)NCBI
MGSCv37235,937,473 - 35,960,928 (-)RGD
Celera235,785,674 - 35,809,139 (-)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006497744   ⟹   XP_006497807
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39235,971,962 - 35,994,455 (-)NCBI
GRCm38236,081,950 - 36,105,061 (-)NCBI
Sequence:
RefSeq Acc Id: XR_374064
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39235,974,007 - 35,996,004 (-)NCBI
GRCm38236,083,995 - 36,105,992 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001076594   ⟸   NM_001083125
- Peptide Label: isoform 2
- UniProtKB: E9QN32 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_032526   ⟸   NM_008500
- Peptide Label: isoform 1
- UniProtKB: H9H9T0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001076596   ⟸   NM_001083127
- Peptide Label: isoform 4
- UniProtKB: Q9R1R0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001076595   ⟸   NM_001083126
- Peptide Label: isoform 3
- UniProtKB: Q6P1H2 (UniProtKB/Swiss-Prot),   O88706 (UniProtKB/Swiss-Prot),   Q9R1R1 (UniProtKB/Swiss-Prot),   Q9R1R0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006497807   ⟸   XM_006497744
- Peptide Label: isoform X1
- UniProtKB: Q6P1H2 (UniProtKB/Swiss-Prot),   O88706 (UniProtKB/Swiss-Prot),   Q9R1R1 (UniProtKB/Swiss-Prot),   Q9R1R0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001342054   ⟸   NM_001355125
- Peptide Label: isoform 4
Ensembl Acc Id: ENSMUSP00000108585   ⟸   ENSMUST00000112961
Ensembl Acc Id: ENSMUSP00000108584   ⟸   ENSMUST00000112960
Ensembl Acc Id: ENSMUSP00000108591   ⟸   ENSMUST00000112967
Ensembl Acc Id: ENSMUSP00000108590   ⟸   ENSMUST00000112966
Ensembl Acc Id: ENSMUSP00000108587   ⟸   ENSMUST00000112963
Ensembl Acc Id: ENSMUSP00000135693   ⟸   ENSMUST00000148852
Ensembl Acc Id: ENSMUSP00000135776   ⟸   ENSMUST00000136821
Protein Domains
Homeobox   LIM zinc-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9R1R0-F1-model_v2 AlphaFold Q9R1R0 1-363 view protein structure

Promoters
RGD ID:6877158
Promoter ID:EPDNEW_M2030
Type:initiation region
Name:Lhx6_2
Description:Mus musculus LIM homeobox protein 6 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M2031  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38236,104,025 - 36,104,085EPDNEW
RGD ID:6877160
Promoter ID:EPDNEW_M2031
Type:multiple initiation site
Name:Lhx6_1
Description:Mus musculus LIM homeobox protein 6 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M2030  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38236,105,408 - 36,105,468EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1306803 AgrOrtholog
Ensembl Genes ENSMUSG00000026890 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000112960 ENTREZGENE
  ENSMUST00000112960.8 UniProtKB/TrEMBL
  ENSMUST00000112961 ENTREZGENE
  ENSMUST00000112961.10 UniProtKB/Swiss-Prot
  ENSMUST00000112963.8 UniProtKB/Swiss-Prot
  ENSMUST00000112966 ENTREZGENE
  ENSMUST00000112966.10 UniProtKB/Swiss-Prot
  ENSMUST00000112967 ENTREZGENE
  ENSMUST00000112967.12 UniProtKB/TrEMBL
  ENSMUST00000136821.9 UniProtKB/TrEMBL
  ENSMUST00000148852.4 UniProtKB/Swiss-Prot
Gene3D-CATH Cysteine Rich Protein UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_Homeobox_TF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:16874 UniProtKB/Swiss-Prot
MGD MGI:1306803 ENTREZGENE
NCBI Gene 16874 ENTREZGENE
PANTHER LIM/HOMEOBOX PROTEIN LHX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM/HOMEOBOX PROTEIN LHX6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lhx6 PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_DOMAIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF46689 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt E9QN32 ENTREZGENE, UniProtKB/TrEMBL
  H3BLG4_MOUSE UniProtKB/TrEMBL
  H9H9T0 ENTREZGENE, UniProtKB/TrEMBL
  LHX6_MOUSE UniProtKB/Swiss-Prot
  O88706 ENTREZGENE
  Q3UED5_MOUSE UniProtKB/TrEMBL
  Q6P1H2 ENTREZGENE
  Q8C1U0_MOUSE UniProtKB/TrEMBL
  Q9R1R0 ENTREZGENE
  Q9R1R1 ENTREZGENE
UniProt Secondary O88706 UniProtKB/Swiss-Prot
  Q6P1H2 UniProtKB/Swiss-Prot
  Q9R1R1 UniProtKB/Swiss-Prot