Lmo1 (LIM domain only 1) - Rat Genome Database

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Gene: Lmo1 (LIM domain only 1) Rattus norvegicus
Analyze
Symbol: Lmo1
Name: LIM domain only 1
RGD ID: 621166
Description: Predicted to enable DNA-binding transcription factor binding activity and transcription coactivator activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II and regulation of T cell homeostatic proliferation. Predicted to be active in nucleus. Orthologous to human LMO1 (LIM domain only 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Dat1; dopamine-inducible LIM-domain transcription factor DAT1; LIM domain only 3; LIM domain only protein 1; LIM domain only protein 3; LMO-3; Lmo3; neuronal-specific transcription factor DAT1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
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
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

Cellular Component
nucleolus  (ISO)
nucleus  (IBA,IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Information Derived from GenBank Report RGD, Sept. 2003
Additional References at PubMed
PMID:1508213   PMID:1703797   PMID:8889548   PMID:9819382   PMID:10373552   PMID:19228115   PMID:20855495  


Genomics

Comparative Map Data
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
(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
(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
151 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:182
Count of miRNA genes:134
Interacting mature miRNAs:143
Transcripts:ENSRNOT00000019690
Prediction methods:Microtar, Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1121767634166767634Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
1598866Bp287Blood pressure QTL 2875.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383668Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1151162512201278233Rat
1598850Bp297Blood pressure QTL 2972.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1151162512201278233Rat
4889428Stresp24Stress response QTL 240.05heart pumping trait (VT:2000009)absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)1155866514200866514Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1151646613196646613Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1158633083203633083Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1154561505199561505Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642644214537671Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
631206Niddm40Non-insulin dependent diabetes mellitus QTL 40blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1136745990163747690Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
2293140Bp313Blood pressure QTL 313arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121833674166833674Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1144267916172949660Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144267916174133260Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
2313060Bss71Bone structure and strength QTL 712.60.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1118944747163944747Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1136830018181830018Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1582204Livw1Liver weight QTL 13.60.0003liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)1155422851172949803Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501168883176Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512201278233Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1156677124201278233Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
631548Bp88Blood pressure QTL 8850.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1156677124176484451Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1151162512201278233Rat

Markers in Region
AI412577  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21163,132,347 - 163,132,545 (+)MAPPERmRatBN7.2
Rnor_6.01173,728,193 - 173,728,390NCBIRnor6.0
Rnor_5.01180,718,652 - 180,718,849UniSTSRnor5.0
RGSC_v3.41166,706,035 - 166,706,232UniSTSRGSC3.4
Celera1161,038,360 - 161,038,557UniSTS
RH 3.4 Map11354.0UniSTS
Cytogenetic Map1q33UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 4 4 4 60 17
Low 3 40 13 2 3 2 7 10 14 30 24 11 7
Below cutoff 3 32 27 14 27 1 1 5 1

Sequence


RefSeq Acc Id: ENSRNOT00000019690   ⟹   ENSRNOP00000019690
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1163,132,339 - 163,168,275 (-)Ensembl
Rnor_6.0 Ensembl1173,728,184 - 173,764,246 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086944   ⟹   ENSRNOP00000072872
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1163,132,339 - 163,168,522 (-)Ensembl
Rnor_6.0 Ensembl1173,728,191 - 173,764,250 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093951   ⟹   ENSRNOP00000083193
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1163,132,340 - 163,146,693 (-)Ensembl
RefSeq Acc Id: NM_001402442   ⟹   NP_001389371
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,567,156 - 172,598,533 (-)NCBI
mRatBN7.21163,132,338 - 163,163,715 (-)NCBI
RefSeq Acc Id: NM_139112   ⟹   NP_620812
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,567,156 - 172,603,157 (-)NCBI
mRatBN7.21163,132,338 - 163,168,339 (-)NCBI
Rnor_6.01173,728,183 - 173,764,246 (-)NCBI
Rnor_5.01180,718,642 - 180,753,931 (-)NCBI
RGSC_v3.41166,706,025 - 166,741,550 (-)RGD
Celera1161,038,350 - 161,074,053 (-)RGD
Sequence:
RefSeq Acc Id: XM_006229968   ⟹   XP_006230030
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,567,156 - 172,603,282 (-)NCBI
mRatBN7.21163,132,338 - 163,168,521 (-)NCBI
Rnor_6.01173,728,183 - 173,764,288 (-)NCBI
Rnor_5.01180,718,642 - 180,753,931 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098608   ⟹   XP_038954536
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,567,156 - 172,581,511 (-)NCBI
mRatBN7.21163,132,338 - 163,146,688 (-)NCBI
RefSeq Acc Id: XM_039098644   ⟹   XP_038954572
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,567,156 - 172,598,531 (-)NCBI
mRatBN7.21163,132,338 - 163,163,736 (-)NCBI
RefSeq Acc Id: XM_063280885   ⟹   XP_063136955
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,567,156 - 172,598,227 (-)NCBI
RefSeq Acc Id: NP_620812   ⟸   NM_139112
- Peptide Label: isoform 2
- UniProtKB: Q99MB5 (UniProtKB/Swiss-Prot),   D4A8W2 (UniProtKB/TrEMBL),   A6I7V7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230030   ⟸   XM_006229968
- Peptide Label: isoform X1
- UniProtKB: Q99MB5 (UniProtKB/Swiss-Prot),   A0A0G2K422 (UniProtKB/TrEMBL),   A6I7V8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000019690   ⟸   ENSRNOT00000019690
RefSeq Acc Id: ENSRNOP00000072872   ⟸   ENSRNOT00000086944
RefSeq Acc Id: XP_038954572   ⟸   XM_039098644
- Peptide Label: isoform X3
- UniProtKB: Q99MB5 (UniProtKB/Swiss-Prot),   A6I7V9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954536   ⟸   XM_039098608
- Peptide Label: isoform X2
- UniProtKB: Q99MB5 (UniProtKB/Swiss-Prot),   A0A8I5ZW30 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000083193   ⟸   ENSRNOT00000093951
RefSeq Acc Id: NP_001389371   ⟸   NM_001402442
- Peptide Label: isoform 1
- UniProtKB: Q99MB5 (UniProtKB/Swiss-Prot),   A0A0G2K422 (UniProtKB/TrEMBL),   A6I7V8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063136955   ⟸   XM_063280885
- Peptide Label: isoform X3
- UniProtKB: Q99MB5 (UniProtKB/Swiss-Prot),   A6I7V9 (UniProtKB/TrEMBL)
Protein Domains
LIM zinc-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q99MB5-F1-model_v2 AlphaFold Q99MB5 1-145 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13690305
Promoter ID:EPDNEW_R825
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/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01173,764,310 - 173,764,370EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621166 AgrOrtholog
BioCyc Gene G2FUF-57877 BioCyc
Ensembl Genes ENSRNOG00000014629 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019690 ENTREZGENE
  ENSRNOT00000019690.6 UniProtKB/TrEMBL
  ENSRNOT00000086944.2 UniProtKB/TrEMBL
  ENSRNOT00000093951.1 UniProtKB/TrEMBL
Gene3D-CATH Cysteine Rich Protein UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Znf_LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:245979 UniProtKB/TrEMBL
NCBI Gene 245979 ENTREZGENE
PANTHER LD11652P UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHOMBOTIN-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lmo1 PhenoGen
PROSITE LIM_DOMAIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014629 RatGTEx
SMART LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K422 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZW30 ENTREZGENE, UniProtKB/TrEMBL
  A6I7V7 ENTREZGENE, UniProtKB/TrEMBL
  A6I7V8 ENTREZGENE, UniProtKB/TrEMBL
  A6I7V9 ENTREZGENE, UniProtKB/TrEMBL
  D4A8W2 ENTREZGENE, UniProtKB/TrEMBL
  LMO3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-19 Lmo1  LIM domain only 1  Lmo3  LIM domain only 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Lmo3  LIM domain only 3  Dat1  dopamine-inducible LIM-domain transcription factor DAT1  Symbol and Name updated 1299863 APPROVED
2002-08-07 Dat1  dopamine-inducible LIM-domain transcription factor DAT1      Symbol and Name status set to provisional 70820 PROVISIONAL