LMO1 (LIM domain only 1) - Rat Genome Database

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Gene: LMO1 (LIM domain only 1) Homo sapiens
Analyze
Symbol: LMO1
Name: LIM domain only 1
RGD ID: 1352109
HGNC Page HGNC:6641
Description: Predicted to enable DNA-binding transcription factor binding activity and transcription coactivator activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in nucleus.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: cysteine-rich protein TTG-1; LIM domain only 1 (rhombotin 1); LIM domain only protein 1; LMO-1; MGC116692; RBTN1; RHOM1; rhombotin 1; rhombotin-1; T-cell translocation gene 1; T-cell translocation protein 1; TTG1
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38118,224,309 - 8,268,787 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl118,224,309 - 8,268,716 (-)EnsemblGRCh38hg38GRCh38
GRCh37118,245,856 - 8,290,334 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36118,202,433 - 8,241,982 (-)NCBINCBI36Build 36hg18NCBI36
Build 34118,202,432 - 8,241,982NCBI
Celera118,363,953 - 8,403,488 (-)NCBICelera
Cytogenetic Map11p15.4NCBI
HuRef117,913,914 - 7,958,156 (-)NCBIHuRef
CHM1_1118,244,701 - 8,288,993 (-)NCBICHM1_1
T2T-CHM13v2.0118,305,646 - 8,350,087 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleolus  (ISO)
nucleoplasm  (TAS)
nucleus  (IBA,IEA,ISS)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1507224   PMID:1703797   PMID:2034676   PMID:2052354   PMID:2303035   PMID:2311586   PMID:2501659   PMID:3259177   PMID:7957052   PMID:8078932   PMID:8595880   PMID:8876198  
PMID:9020185   PMID:9819382   PMID:9872335   PMID:10603358   PMID:11528126   PMID:12477932   PMID:15123239   PMID:15342556   PMID:15489334   PMID:16103065   PMID:17207965   PMID:17471240  
PMID:20200953   PMID:20379614   PMID:20855495   PMID:21124317   PMID:21516116   PMID:21602560   PMID:21873635   PMID:22581228   PMID:22941191   PMID:23302769   PMID:23743675   PMID:24379077  
PMID:24845030   PMID:25037573   PMID:25416956   PMID:26030754   PMID:26459575   PMID:26560027   PMID:27009839   PMID:27107012   PMID:28094252   PMID:28260788   PMID:28768142   PMID:28867147  
PMID:30194082   PMID:31515488   PMID:31819055   PMID:31830377   PMID:32296183   PMID:33961781   PMID:34076278   PMID:36470425  


Genomics

Comparative Map Data
LMO1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38118,224,309 - 8,268,787 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl118,224,309 - 8,268,716 (-)EnsemblGRCh38hg38GRCh38
GRCh37118,245,856 - 8,290,334 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36118,202,433 - 8,241,982 (-)NCBINCBI36Build 36hg18NCBI36
Build 34118,202,432 - 8,241,982NCBI
Celera118,363,953 - 8,403,488 (-)NCBICelera
Cytogenetic Map11p15.4NCBI
HuRef117,913,914 - 7,958,156 (-)NCBIHuRef
CHM1_1118,244,701 - 8,288,993 (-)NCBICHM1_1
T2T-CHM13v2.0118,305,646 - 8,350,087 (-)NCBIT2T-CHM13v2.0
Lmo1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397108,737,776 - 108,774,356 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7108,737,779 - 108,774,414 (-)EnsemblGRCm39 Ensembl
GRCm387109,138,565 - 109,175,207 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7109,138,572 - 109,175,207 (-)EnsemblGRCm38mm10GRCm38
MGSCv377116,282,086 - 116,313,822 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367108,929,748 - 108,961,690 (-)NCBIMGSCv36mm8
Celera7109,115,069 - 109,146,750 (-)NCBICelera
Cytogenetic Map7E3NCBI
cM Map757.21NCBI
Lmo1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81172,567,156 - 172,603,282 (-)NCBIGRCr8
mRatBN7.21163,132,338 - 163,168,521 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1163,132,339 - 163,168,522 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1171,473,978 - 171,509,933 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01178,660,040 - 178,695,995 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01171,332,980 - 171,368,943 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01173,728,183 - 173,764,288 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1173,728,184 - 173,764,250 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01180,718,642 - 180,753,931 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41166,706,025 - 166,741,550 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11166,817,032 - 166,852,213 (-)NCBI
Celera1161,038,350 - 161,074,053 (-)NCBICelera
Cytogenetic Map1q33NCBI
Lmo1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541424,021,218 - 24,061,183 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541424,021,275 - 24,072,098 (-)NCBIChiLan1.0ChiLan1.0
LMO1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2910,648,739 - 10,693,150 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11110,610,883 - 10,655,271 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0118,342,318 - 8,386,659 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1118,088,223 - 8,127,704 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl118,088,223 - 8,132,215 (-)Ensemblpanpan1.1panPan2
LMO1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12131,727,723 - 31,780,179 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2131,727,242 - 31,763,645 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2131,296,487 - 31,348,744 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02132,601,145 - 32,653,395 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2132,601,145 - 32,641,571 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12131,870,976 - 31,923,201 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02132,036,918 - 32,089,231 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02132,330,836 - 32,383,167 (-)NCBIUU_Cfam_GSD_1.0
Lmo1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494753,626,372 - 53,713,474 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365289,707,677 - 9,747,468 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365289,707,683 - 9,747,449 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LMO1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl91,076,938 - 1,082,974 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.191,045,138 - 1,082,974 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.291,248,307 - 1,282,660 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LMO1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1156,533,530 - 56,578,167 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl156,571,860 - 56,577,855 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038154,259,090 - 154,304,334 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lmo1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624766392,953 - 431,015 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624766393,017 - 431,118 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LMO1
15 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11p15.5-13(chr11:202758-31726224)x3 copy number gain See cases [RCV000053613] Chr11:202758..31726224 [GRCh38]
Chr11:202758..31747772 [GRCh37]
Chr11:192758..31704348 [NCBI36]
Chr11:11p15.5-13		 pathogenic
GRCh38/hg38 11p15.5-15.1(chr11:446754-18904742)x3 copy number gain See cases [RCV000133997] Chr11:446754..18904742 [GRCh38]
Chr11:446754..18926289 [GRCh37]
Chr11:436754..18882865 [NCBI36]
Chr11:11p15.5-15.1		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:61793-10727969)x3 copy number gain See cases [RCV000139987] Chr11:61793..10727969 [GRCh38]
Chr11:61793..10749516 [GRCh37]
Chr11:51793..10706092 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.4(chr11:7995676-10437205)x3 copy number gain See cases [RCV000143490] Chr11:7995676..10437205 [GRCh38]
Chr11:8017223..10458752 [GRCh37]
Chr11:7973799..10415328 [NCBI36]
Chr11:11p15.4		 uncertain significance
NM_002315.3(LMO1):c.26-3357G>T single nucleotide variant LIM DOMAIN ONLY-1 POLYMORPHISM [RCV000207127]|Neuroblastoma, susceptibility to, 7 [RCV004586626] Chr11:8233861 [GRCh38]
Chr11:8255408 [GRCh37]
Chr11:11p15.4		 benign|protective
GRCh37/hg19 11p15.4(chr11:8060216-8637954)x3 copy number gain See cases [RCV000240463] Chr11:8060216..8637954 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-15.3(chr11:193146-12643136) copy number gain Silver-Russell syndrome 1 [RCV000767567] Chr11:193146..12643136 [GRCh37]
Chr11:11p15.5-15.3		 pathogenic
GRCh37/hg19 11p15.5-12(chr11:230615-37698540)x3 copy number gain See cases [RCV000511561] Chr11:230615..37698540 [GRCh37]
Chr11:11p15.5-12		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:230616-134938470) copy number gain See cases [RCV000511729] Chr11:230616..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:230616-134938470)x3 copy number gain See cases [RCV000510881] Chr11:230616..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-14.3(chr11:230615-25584362)x3 copy number gain See cases [RCV000512225] Chr11:230615..25584362 [GRCh37]
Chr11:11p15.5-14.3		 pathogenic
GRCh37/hg19 11p15.5-13(chr11:230615-31995219)x3 copy number gain See cases [RCV000512477] Chr11:230615..31995219 [GRCh37]
Chr11:11p15.5-13		 pathogenic
GRCh37/hg19 11p15.4(chr11:6969013-9257231)x3 copy number gain not provided [RCV000683360] Chr11:6969013..9257231 [GRCh37]
Chr11:11p15.4		 pathogenic
GRCh37/hg19 11p15.4(chr11:7837338-9295428)x3 copy number gain not provided [RCV000683357] Chr11:7837338..9295428 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-15.4(chr11:230615-9704511)x3 copy number gain not provided [RCV000683369] Chr11:230615..9704511 [GRCh37]
Chr11:11p15.5-15.4		 pathogenic
GRCh37/hg19 11p15.5-15.1(chr11:230615-17099213)x3 copy number gain not provided [RCV000683372] Chr11:230615..17099213 [GRCh37]
Chr11:11p15.5-15.1		 pathogenic
GRCh37/hg19 11p15.4(chr11:7418934-8308834)x3 copy number gain not provided [RCV000683352] Chr11:7418934..8308834 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-q25(chr11:198510-134934063)x3 copy number gain not provided [RCV000737348] Chr11:198510..134934063 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:70864-134938470)x3 copy number gain not provided [RCV000749874] Chr11:70864..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.4(chr11:8153513-8263367)x3 copy number gain not provided [RCV000847043] Chr11:8153513..8263367 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.4(chr11:7953436-8303138)x3 copy number gain not provided [RCV000846250] Chr11:7953436..8303138 [GRCh37]
Chr11:11p15.4		 uncertain significance
NM_002315.3(LMO1):c.449C>T (p.Thr150Ile) single nucleotide variant not specified [RCV004333158] Chr11:8224638 [GRCh38]
Chr11:8246185 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-13(chr11:235934-33826995)x3 copy number gain not provided [RCV001006372] Chr11:235934..33826995 [GRCh37]
Chr11:11p15.5-13		 pathogenic
GRCh37/hg19 11p15.5-15.4(chr11:210300-8664358)x3 copy number gain Silver-Russell syndrome 1 [RCV001263222] Chr11:210300..8664358 [GRCh37]
Chr11:11p15.5-15.4		 pathogenic
NM_002315.3(LMO1):c.385T>A (p.Phe129Ile) single nucleotide variant not provided [RCV001357426]|not specified [RCV004034482] Chr11:8224702 [GRCh38]
Chr11:8246249 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-14.2(chr11:230615-26881146)x3 copy number gain See cases [RCV002286351] Chr11:230615..26881146 [GRCh37]
Chr11:11p15.5-14.2		 pathogenic
GRCh37/hg19 11p15.5-15.4(chr11:230616-8250724)x3 copy number gain not provided [RCV002472435] Chr11:230616..8250724 [GRCh37]
Chr11:11p15.5-15.4		 pathogenic
NM_002315.3(LMO1):c.178G>A (p.Glu60Lys) single nucleotide variant not specified [RCV004151019] Chr11:8230352 [GRCh38]
Chr11:8251899 [GRCh37]
Chr11:11p15.4		 uncertain significance
NM_002315.3(LMO1):c.118T>G (p.Leu40Val) single nucleotide variant not specified [RCV004361089] Chr11:8230412 [GRCh38]
Chr11:8251959 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-15.4(chr11:230615-8821443)x3 copy number gain Russell-Silver syndrome [RCV003444025] Chr11:230615..8821443 [GRCh37]
Chr11:11p15.5-15.4		 pathogenic
NM_002315.3(LMO1):c.46C>A (p.Gln16Lys) single nucleotide variant not specified [RCV004407694] Chr11:8230484 [GRCh38]
Chr11:8252031 [GRCh37]
Chr11:11p15.4		 uncertain significance
NM_002315.3(LMO1):c.15C>A (p.Asp5Glu) single nucleotide variant not specified [RCV004634049] Chr11:8263348 [GRCh38]
Chr11:8284895 [GRCh37]
Chr11:11p15.4		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1207
Count of miRNA genes:486
Interacting mature miRNAs:542
Transcripts:ENST00000335790, ENST00000428101, ENST00000524379, ENST00000534484
Prediction methods:Microtar, 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 (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407142148GWAS791124_Hneuroblastoma QTL GWAS791124 (human)5e-16neuroblastoma1182313068231307Human
1576345LVC1_HLeft ventricular contractility QTL 1 (human)3.93Left ventricular contractility11797076733970767Human
407338822GWAS987798_Hglutamine measurement QTL GWAS987798 (human)3e-46glutamine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
2289313BW388_HBody weight QTL 388 (human)1.570.00356Body fat amountabdominal11443467130434671Human
407286082GWAS935058_Hbody height QTL GWAS935058 (human)2e-14body height (VT:0001253)body height (CMO:0000106)1182507068250707Human
407286080GWAS935056_Hbody height QTL GWAS935056 (human)3e-77body height (VT:0001253)body height (CMO:0000106)1182292648229265Human
407267073GWAS916049_Halanine measurement QTL GWAS916049 (human)7e-12alanine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
407338061GWAS987037_Hhemoglobin A1 measurement QTL GWAS987037 (human)6e-10hemoglobin A1 measurement1182338618233862Human
407308107GWAS957083_Hglycine measurement QTL GWAS957083 (human)1e-11glycine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
406903440GWAS552416_Hneuroblastoma QTL GWAS552416 (human)3e-16neuroblastoma1182338618233862Human
407043539GWAS692515_Hbody mass index QTL GWAS692515 (human)0.000008body mass indexbody mass index (BMI) (CMO:0000105)1182612398261240Human
406989521GWAS638497_Hbirth weight, parental genotype effect measurement QTL GWAS638497 (human)3e-21birth weight, parental genotype effect measurementneonatal body weight (CMO:0002079)1182338618233862Human
1559107SCL32_HSerum cholesterol level QTL 32 (human)3.27Lipid levelLDL cholesterol11289243028892430Human
407035668GWAS684644_Hdiastolic blood pressure QTL GWAS684644 (human)0.0000007diastolic blood pressurediastolic blood pressure (CMO:0000005)1182313068231307Human
407069141GWAS718117_H2-aminobutyrate measurement QTL GWAS718117 (human)2e-10tyrosine measurement1182338618233862Human
407123219GWAS772195_Hglucose measurement QTL GWAS772195 (human)1e-16glucose measurementblood glucose level (CMO:0000046)1182338618233862Human
407257503GWAS906479_Hserum albumin measurement QTL GWAS906479 (human)9e-10serum albumin measurementserum albumin level (CMO:0000550)1182338618233862Human
407134809GWAS783785_Hparental genotype effect measurement QTL GWAS783785 (human)2e-09histidine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
1559113SCL31_HSerum cholesterol level QTL 31 (human)3.72Lipid levelLDL cholesterol11289243028892430Human
406953311GWAS602287_Hfasting blood glucose measurement QTL GWAS602287 (human)4e-18fasting blood glucose measurementblood glucose level (CMO:0000046)1182338618233862Human
407418327GWAS1067303_Hdiastolic blood pressure QTL GWAS1067303 (human)1e-11diastolic blood pressurediastolic blood pressure (CMO:0000005)1182313068231307Human
407216858GWAS865834_Hselenium measurement, response to dietary selenium supplementation QTL GWAS865834 (human)0.000004selenium measurement, response to dietary selenium supplementation1182378118237812Human
407042144GWAS691120_Halcohol drinking QTL GWAS691120 (human)0.0000007alcohol drinking1182292648229265Human
407115872GWAS764848_Halanine measurement QTL GWAS764848 (human)7e-27alanine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
407241250GWAS890226_Htelomere length QTL GWAS890226 (human)0.000002telomere length1182343088234309Human
407268579GWAS917555_Hglutamine measurement QTL GWAS917555 (human)9e-16glutamine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
407060068GWAS709044_Hglutamine measurement QTL GWAS709044 (human)1e-35glutamine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
406898024GWAS547000_Hsmoking initiation QTL GWAS547000 (human)2e-13smoking initiation1182486978248698Human
407112110GWAS761086_Hbody height QTL GWAS761086 (human)0.0000003body height (VT:0001253)body height (CMO:0000106)1182313068231307Human
407070639GWAS719615_Halanine measurement QTL GWAS719615 (human)2e-16alanine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
407109612GWAS758588_Hbody height QTL GWAS758588 (human)7e-15body height (VT:0001253)body height (CMO:0000106)1182338618233862Human
407123124GWAS772100_Hneuroblastoma QTL GWAS772100 (human)1e-13neuroblastoma1182313068231307Human
407310708GWAS959684_Halanine measurement QTL GWAS959684 (human)1e-30alanine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
407153328GWAS802304_Hgut microbiome measurement QTL GWAS802304 (human)0.000003gut microbiome measurement1182247968224797Human
406929142GWAS578118_Hbody height QTL GWAS578118 (human)2e-08body height (VT:0001253)body height (CMO:0000106)1182285968228597Human
407136691GWAS785667_Hparental genotype effect measurement QTL GWAS785667 (human)2e-08parental genotype effect measurement1182338618233862Human
407028155GWAS677131_Hsystolic blood pressure QTL GWAS677131 (human)0.000002systolic blood pressuresystolic blood pressure (CMO:0000004)1182313068231307Human
407190591GWAS839567_Hbody height QTL GWAS839567 (human)4e-10body height (VT:0001253)body height (CMO:0000106)1182285968228597Human
407150590GWAS799566_Hfasting blood glucose measurement QTL GWAS799566 (human)3e-09fasting blood glucose measurementblood glucose level (CMO:0000046)1182335598233560Human
406930362GWAS579338_Hsmoking initiation QTL GWAS579338 (human)1e-15smoking initiation1182551118255112Human
407121528GWAS770504_Hglucose measurement QTL GWAS770504 (human)9e-17glucose measurementblood glucose level (CMO:0000046)1182338618233862Human
406930365GWAS579341_Hsmoking initiation QTL GWAS579341 (human)9e-16smoking initiation1182551888255189Human
407116089GWAS765065_Hglutamine measurement QTL GWAS765065 (human)4e-33glutamine measurementblood amino acid measurement (CMO:0003730)1182338618233862Human
407206970GWAS855946_Hglucose measurement QTL GWAS855946 (human)3e-08glucose measurementblood glucose level (CMO:0000046)1182338618233862Human

Markers in Region
Lmo1  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37118,251,836 - 8,251,995UniSTSGRCh37
GRCh37118,245,942 - 8,246,098UniSTSGRCh37
Build 36118,208,412 - 8,208,571RGDNCBI36
Celera118,364,038 - 8,364,194UniSTS
Celera118,369,927 - 8,370,086RGD
Cytogenetic Map11p15UniSTS
HuRef117,919,894 - 7,920,053UniSTS
HuRef117,914,005 - 7,914,161UniSTS
GeneMap99-GB4 RH Map1141.43UniSTS
D11S3445  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37118,270,418 - 8,270,611UniSTSGRCh37
Build 36118,226,994 - 8,227,187RGDNCBI36
Celera118,388,515 - 8,388,708RGD
Cytogenetic Map11p15UniSTS
HuRef117,938,414 - 7,938,607UniSTS
D11S4594  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37118,245,880 - 8,246,054UniSTSGRCh37
Build 36118,202,456 - 8,202,630RGDNCBI36
Celera118,363,976 - 8,364,150RGD
Cytogenetic Map11p15UniSTS
HuRef117,913,943 - 7,914,117UniSTS
LMO1_2846  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37118,245,863 - 8,246,370UniSTSGRCh37
Build 36118,202,439 - 8,202,946RGDNCBI36
Celera118,363,959 - 8,364,466RGD
HuRef117,913,926 - 7,914,433UniSTS


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
1046 1914 2465 1712 4823 1232 1582 4 229 701 106 2156 4813 4387 28 3614 681 1569 1252 134 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NG_032827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_002315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_073006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006718228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011520098 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011520099 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011520100 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054368770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054368771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054368772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054368773 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC091013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ277661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ277662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW006226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC039512 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC069673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC069752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC069793 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC096056 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC096057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC096058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BP218183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KT584410 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KT585231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M26682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U73635 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64246 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENST00000335790   ⟹   ENSP00000338207
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl118,224,309 - 8,263,878 (-)Ensembl
Ensembl Acc Id: ENST00000428101   ⟹   ENSP00000404538
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl118,224,314 - 8,268,716 (-)Ensembl
Ensembl Acc Id: ENST00000524379
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl118,224,449 - 8,263,388 (-)Ensembl
Ensembl Acc Id: ENST00000534484   ⟹   ENSP00000435456
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl118,224,479 - 8,263,858 (-)Ensembl
RefSeq Acc Id: NM_001270428   ⟹   NP_001257357
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,224,309 - 8,268,787 (-)NCBI
HuRef117,913,914 - 7,958,156 (-)NCBI
CHM1_1118,244,701 - 8,288,993 (-)NCBI
T2T-CHM13v2.0118,305,646 - 8,350,087 (-)NCBI
Sequence:
RefSeq Acc Id: NM_002315   ⟹   NP_002306
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,224,309 - 8,263,878 (-)NCBI
GRCh37118,245,851 - 8,290,182 (-)NCBI
Build 36118,202,433 - 8,241,982 (-)NCBI Archive
HuRef117,913,914 - 7,958,156 (-)NCBI
CHM1_1118,244,701 - 8,284,234 (-)NCBI
T2T-CHM13v2.0118,305,646 - 8,345,176 (-)NCBI
Sequence:
RefSeq Acc Id: NR_073006
RefSeq Status: REVIEWED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,224,309 - 8,263,878 (-)NCBI
GRCh37118,245,851 - 8,290,182 (-)NCBI
HuRef117,913,914 - 7,958,156 (-)NCBI
CHM1_1118,244,701 - 8,284,234 (-)NCBI
T2T-CHM13v2.0118,305,646 - 8,345,176 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006718228   ⟹   XP_006718291
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,224,309 - 8,236,141 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011520098   ⟹   XP_011518400
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,224,309 - 8,234,046 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011520099   ⟹   XP_011518401
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,224,309 - 8,262,850 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011520100   ⟹   XP_011518402
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,224,309 - 8,230,278 (-)NCBI
Sequence:
RefSeq Acc Id: XM_054368770   ⟹   XP_054224745
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0118,305,646 - 8,317,477 (-)NCBI
RefSeq Acc Id: XM_054368771   ⟹   XP_054224746
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0118,305,646 - 8,344,148 (-)NCBI
RefSeq Acc Id: XM_054368772   ⟹   XP_054224747
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0118,305,646 - 8,315,381 (-)NCBI
RefSeq Acc Id: XM_054368773   ⟹   XP_054224748
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0118,305,646 - 8,311,613 (-)NCBI
RefSeq Acc Id: NP_002306   ⟸   NM_002315
- Peptide Label: isoform a
- UniProtKB: Q4VBC5 (UniProtKB/Swiss-Prot),   E9PSF5 (UniProtKB/Swiss-Prot),   Q8IXR0 (UniProtKB/Swiss-Prot),   P25800 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257357   ⟸   NM_001270428
- Peptide Label: isoform b
- UniProtKB: P25800 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006718291   ⟸   XM_006718228
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_011518401   ⟸   XM_011520099
- Peptide Label: isoform X2
- UniProtKB: E9PK83 (UniProtKB/TrEMBL),   F5H3S4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011518400   ⟸   XM_011520098
- Peptide Label: isoform X2
- UniProtKB: E9PK83 (UniProtKB/TrEMBL),   F5H3S4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011518402   ⟸   XM_011520100
- Peptide Label: isoform X3
- Sequence:
Ensembl Acc Id: ENSP00000404538   ⟸   ENST00000428101
Ensembl Acc Id: ENSP00000338207   ⟸   ENST00000335790
Ensembl Acc Id: ENSP00000435456   ⟸   ENST00000534484
RefSeq Acc Id: XP_054224746   ⟸   XM_054368771
- Peptide Label: isoform X2
- UniProtKB: E9PK83 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054224745   ⟸   XM_054368770
- Peptide Label: isoform X1
RefSeq Acc Id: XP_054224747   ⟸   XM_054368772
- Peptide Label: isoform X2
- UniProtKB: E9PK83 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054224748   ⟸   XM_054368773
- Peptide Label: isoform X3
Protein Domains
LIM zinc-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P25800-F1-model_v2 AlphaFold P25800 1-156 view protein structure

Promoters
RGD ID:7219573
Promoter ID:EPDNEW_H15532
Type:initiation region
Name:LMO1_1
Description:LIM domain only 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H15533  EPDNEW_H15534  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,263,468 - 8,263,528EPDNEW
RGD ID:7219575
Promoter ID:EPDNEW_H15533
Type:initiation region
Name:LMO1_2
Description:LIM domain only 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H15532  EPDNEW_H15534  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,263,878 - 8,263,938EPDNEW
RGD ID:7219577
Promoter ID:EPDNEW_H15534
Type:initiation region
Name:LMO1_3
Description:LIM domain only 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H15532  EPDNEW_H15533  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,268,787 - 8,268,847EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:6641 AgrOrtholog
COSMIC LMO1 COSMIC
Ensembl Genes ENSG00000166407 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000335790 ENTREZGENE
  ENST00000335790.8 UniProtKB/Swiss-Prot
  ENST00000428101 ENTREZGENE
  ENST00000428101.6 UniProtKB/Swiss-Prot
  ENST00000534484 ENTREZGENE
  ENST00000534484.1 UniProtKB/TrEMBL
Gene3D-CATH Cysteine Rich Protein UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000166407 GTEx
HGNC ID HGNC:6641 ENTREZGENE
Human Proteome Map LMO1 Human Proteome Map
InterPro LMO_RBTN_TF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:4004 UniProtKB/Swiss-Prot
NCBI Gene 4004 ENTREZGENE
OMIM 186921 OMIM
PANTHER LD11652P UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHOMBOTIN-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA30407 PharmGKB
PROSITE LIM_DOMAIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt E9PK83 ENTREZGENE, UniProtKB/TrEMBL
  E9PSF5 ENTREZGENE
  F5H3S4 ENTREZGENE
  P25800 ENTREZGENE
  Q4VBC4_HUMAN UniProtKB/TrEMBL
  Q4VBC5 ENTREZGENE
  Q8IXR0 ENTREZGENE
  Q9H4D3_HUMAN UniProtKB/TrEMBL
  RBTN1_HUMAN UniProtKB/Swiss-Prot
UniProt Secondary E9PSF5 UniProtKB/Swiss-Prot
  Q4VBC5 UniProtKB/Swiss-Prot
  Q8IXR0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-01 LMO1  LIM domain only 1    LIM domain only 1 (rhombotin 1)  Symbol and/or name change 5135510 APPROVED