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Gene: Limd1 (LIM domain containing 1) Rattus norvegicus

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Symbol:

Limd1

Name:

LIM domain containing 1

RGD ID:

1309830

Description:

Predicted to enable transcription corepressor activity. Predicted to be involved in several processes, including negative regulation of macromolecule biosynthetic process; negative regulation of osteoblast differentiation; and negative regulation of signal transduction. Predicted to act upstream of or within P-body assembly and miRNA-mediated post-transcriptional gene silencing. Predicted to be located in cytoplasm and focal adhesion. Predicted to be part of RISC complex and transcription regulator complex. Predicted to be active in P-body; adherens junction; and nucleus. Orthologous to human LIMD1 (LIM domain containing 1); INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LIM domain-containing protein 1; LIM domains containing 1; LOC316101

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	LIMD1 (LIM domain containing 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Limd1 (LIM domains containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Limd1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LIMD1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LIMD1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Limd1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LIMD1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LIMD1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Limd1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Limd1 (LIM domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	LIMD1 (LIM domain containing 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Limd1 (LIM domains containing 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	limd1a (LIM domains containing 1a)	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PhylomeDB)
Drosophila melanogaster (fruit fly):	jub	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	jub	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	limd1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	131,998,262 - 132,045,924 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	8	131,999,770 - 132,045,922 (+)	Ensembl				GRCr8
mRatBN7.2	8	123,121,363 - 123,168,476 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	123,122,460 - 123,167,714 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	8	128,711,800 - 128,757,202 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	8	126,910,762 - 126,956,171 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	8	124,740,247 - 124,785,698 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	8	132,553,218 - 132,598,826 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	132,553,218 - 132,598,812 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	8	131,705,918 - 131,751,526 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	8	128,249,326 - 128,294,587 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	8	122,232,892 - 122,278,044 (+)	NCBI		Celera
RGSC_v3.1	8	128,269,450 - 128,313,319 (+)	NCBI
Cytogenetic Map	8	q32	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,4-dinitrotoluene (EXP)

2-palmitoylglycerol (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

7,12-dimethyltetraphene (EXP)

amphetamine (EXP)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

atrazine (EXP)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bortezomib (ISO)

butanal (ISO)

cadmium dichloride (EXP)

caffeine (ISO)

coumarin (ISO)

cyclophosphamide (EXP)

dexamethasone (ISO)

diarsenic trioxide (ISO)

dicrotophos (ISO)

doxorubicin (ISO)

enzyme inhibitor (ISO)

ethanol (ISO)

fenvalerate (EXP)

folic acid (ISO)

gentamycin (EXP)

isoprenaline (ISO)

ivermectin (ISO)

levonorgestrel (ISO)

mercury atom (ISO)

mercury(0) (ISO)

methotrexate (ISO)

nitrates (ISO)

paracetamol (ISO)

potassium chromate (ISO)

sodium arsenite (ISO)

Soman (EXP)

testosterone undecanoate (ISO)

tetrachloromethane (EXP)

thioacetamide (EXP)

triphenyl phosphate (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cytoskeleton organization (IBA)

miRNA-mediated gene silencing by inhibition of translation (IEA,ISO,ISS)

miRNA-mediated post-transcriptional gene silencing (ISO)

negative regulation of canonical Wnt signaling pathway (IEA,ISO,ISS)

negative regulation of DNA-templated transcription (IEA,ISO,ISS)

negative regulation of hippo signaling (IBA,IEA,ISO,ISS)

negative regulation of osteoblast differentiation (IEA,ISO,ISS)

osteoblast development (IEA,ISO,ISS)

P-body assembly (ISO)

phosphorylation (ISO,ISS)

regulation of DNA-templated transcription (IBA)

regulatory ncRNA-mediated gene silencing (IEA)

response to hypoxia (IBA,IEA,ISO,ISS)

Cellular Component

adherens junction (IBA,IEA,ISO,ISS)

anchoring junction (IEA)

cytoplasm (IEA,ISO,ISS)

focal adhesion (IEA,ISO,ISS)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA,ISO,ISS)

P-body (IBA,IEA,ISO)

RISC complex (IEA,ISO)

transcription regulator complex (IBA)

Molecular Function

metal ion binding (IEA)

protein binding (ISO)

transcription corepressor activity (IBA,IEA,ISO,ISS)

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.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:15542589	PMID:17092936	PMID:17909014	PMID:18439753	PMID:18657804	PMID:20303269	PMID:20616046	PMID:21834987	PMID:22286099	PMID:33847835

Genomics

Comparative Map Data

Limd1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	131,998,262 - 132,045,924 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	8	131,999,770 - 132,045,922 (+)	Ensembl				GRCr8
mRatBN7.2	8	123,121,363 - 123,168,476 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	123,122,460 - 123,167,714 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	8	128,711,800 - 128,757,202 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	8	126,910,762 - 126,956,171 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	8	124,740,247 - 124,785,698 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	8	132,553,218 - 132,598,826 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	132,553,218 - 132,598,812 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	8	131,705,918 - 131,751,526 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	8	128,249,326 - 128,294,587 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	8	122,232,892 - 122,278,044 (+)	NCBI		Celera
RGSC_v3.1	8	128,269,450 - 128,313,319 (+)	NCBI
Cytogenetic Map	8	q32	NCBI

LIMD1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	45,594,751 - 45,686,341 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	45,555,394 - 45,686,341 (+)	Ensembl			hg38	GRCh38
GRCh37	3	45,636,243 - 45,727,833 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	45,611,327 - 45,697,759 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	3	45,611,354 - 45,696,569	NCBI
Celera	3	45,574,319 - 45,660,680 (+)	NCBI		Celera
Cytogenetic Map	3	p21.31	NCBI
HuRef	3	45,680,549 - 45,767,058 (+)	NCBI		HuRef
CHM1_1	3	45,586,336 - 45,672,049 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	3	45,610,699 - 45,702,290 (+)	NCBI		T2T-CHM13v2.0

Limd1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	123,306,790 - 123,350,617 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	9	123,307,771 - 123,350,617 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	9	123,478,661 - 123,521,552 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	123,478,706 - 123,521,552 (+)	Ensembl			mm10	GRCm38
MGSCv37	9	123,387,819 - 123,430,670 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	9	123,327,404 - 123,370,215 (+)	NCBI		MGSCv36	mm8
Celera	9	123,931,088 - 123,973,997 (+)	NCBI		Celera
Cytogenetic Map	9	F4	NCBI
cM Map	9	74.0	NCBI

Limd1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955420	26,291,529 - 26,328,637 (-)	Ensembl
ChiLan1.0	NW_004955420	26,290,792 - 26,328,637 (-)	NCBI	ChiLan1.0	ChiLan1.0

LIMD1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	2	45,558,140 - 45,645,858 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	45,563,866 - 45,650,625 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	45,500,413 - 45,587,850 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	46,610,315 - 46,695,406 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	46,610,315 - 46,695,406 (+)	Ensembl			panPan2	panpan1.1

LIMD1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	42,797,316 - 42,867,292 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	42,799,142 - 42,867,428 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	42,717,543 - 42,784,125 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	20	43,282,706 - 43,351,819 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	20	43,283,946 - 43,351,345 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	20	42,525,754 - 42,592,126 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	20	42,933,222 - 42,999,639 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	20	43,208,381 - 43,274,716 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Limd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	197,908,251 - 197,962,194 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936695	259,209 - 314,535 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936695	260,586 - 314,521 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LIMD1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	28,730,278 - 28,811,615 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	13	28,730,192 - 28,811,584 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	31,679,196 - 31,716,731 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LIMD1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	7,065,666 - 7,151,607 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	22	7,065,698 - 7,147,420 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666041	160,014,791 - 160,100,963 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Limd1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624730	75,176,717 - 75,219,314 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624730	75,176,978 - 75,218,606 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Limd1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	8	114,596,387 - 114,646,805 (+)	NCBI		Rrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	400
Count of miRNA genes:	214
Interacting mature miRNAs:	273
Transcripts:	ENSRNOT00000006554
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2303171	Bp331	Blood pressure QTL 331	5.57	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	105462581	132782436	Rat
738011	Anxrr9	Anxiety related response QTL 9	6.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	8	102413464	132782436	Rat
634332	Pia18	Pristane induced arthritis QTL 18	4		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	8	84192326	132782436	Rat
1300171	Bp184	Blood pressure QTL 184	3.66		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	8	79394435	132782436	Rat

Markers in Region

D8Sunn1376

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	123,133,085 - 123,133,303 (+)	MAPPER	mRatBN7.2
Rnor_6.0	8	132,563,844 - 132,564,061	NCBI	Rnor6.0
Rnor_5.0	8	131,716,544 - 131,716,761	UniSTS	Rnor5.0
RGSC_v3.4	8	128,259,952 - 128,260,169	UniSTS	RGSC3.4
Celera	8	122,243,518 - 122,243,735	UniSTS
Cytogenetic Map	8	q32	UniSTS

D8Got315

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	123,136,596 - 123,136,762 (+)	MAPPER	mRatBN7.2
Rnor_6.0	8	132,567,355 - 132,567,520	NCBI	Rnor6.0
Rnor_5.0	8	131,720,055 - 131,720,220	UniSTS	Rnor5.0
RGSC_v3.4	8	128,263,463 - 128,263,628	UniSTS	RGSC3.4
Celera	8	122,247,029 - 122,247,176	UniSTS
Cytogenetic Map	8	q32	UniSTS

RH139102

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	123,167,530 - 123,167,652 (+)	MAPPER	mRatBN7.2
Rnor_6.0	8	132,598,629 - 132,598,750	NCBI	Rnor6.0
Rnor_5.0	8	131,751,329 - 131,751,450	UniSTS	Rnor5.0
RGSC_v3.4	8	128,294,390 - 128,294,511	UniSTS	RGSC3.4
Celera	8	122,277,847 - 122,277,968	UniSTS
RH 3.4 Map	8	1257.89	UniSTS
Cytogenetic Map	8	q32	UniSTS

RH141178

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	123,167,559 - 123,167,709 (+)	MAPPER	mRatBN7.2
Rnor_6.0	8	132,598,658 - 132,598,807	NCBI	Rnor6.0
Rnor_5.0	8	131,751,358 - 131,751,507	UniSTS	Rnor5.0
RGSC_v3.4	8	128,294,419 - 128,294,568	UniSTS	RGSC3.4
Celera	8	122,277,876 - 122,278,025	UniSTS
RH 3.4 Map	8	1277.0	UniSTS
Cytogenetic Map	8	q32	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	162	91	90	59	92	59	6	356	192	11	141	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001112737	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081663	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063265665	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC168666	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473954	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000006554 ⟹ ENSRNOP00000006554

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	8	131,999,770 - 132,045,922 (+)	Ensembl
mRatBN7.2 Ensembl	8	123,122,460 - 123,167,714 (+)	Ensembl
Rnor_6.0 Ensembl	8	132,553,218 - 132,598,812 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000117859 ⟹ ENSRNOP00000087744

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	8	131,999,770 - 132,045,922 (+)	Ensembl
mRatBN7.2 Ensembl	8	123,122,460 - 123,167,714 (+)	Ensembl

RefSeq Acc Id:

NM_001112737 ⟹ NP_001106208

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	131,999,911 - 132,045,176 (+)	NCBI
mRatBN7.2	8	123,122,460 - 123,167,728 (+)	NCBI
Rnor_6.0	8	132,553,218 - 132,598,826 (+)	NCBI
Rnor_5.0	8	131,705,918 - 131,751,526 (+)	NCBI
RGSC_v3.4	8	128,249,326 - 128,294,587 (+)	RGD
Celera	8	122,232,892 - 122,278,044 (+)	RGD

Sequence:

show sequence

GCTGTCCAGCGCGTTTGCAAGTTCGGTTGCCCGACGTGGATGTGAGTTTACTTTTTCTGTGTAC
ATTCTCTGTCTTCTTTCGCCTGTTTTTGGTTTTGTGACTTAGAGGAGAGAACTTTTCTAAGCAG
GCCGGGCACGACTGAAGGCTACTCTGCCCCCACGTGGACGCTCCCCTGGGGAAAAGAAGTCTGA
AAGTAAACTTAGCCTCGCCGGCCTGAAGGCCTCAACTTTGGCTGGACTGTAAGTTTCGGAGTCA
TGACCTTCTCGCTGGGCAGGTGGGAATCTTTATCTATCTTGGGCTGGACCTGAAACCTCAGTCA
GCACCCAAATCTCCCCCACCCCATTCACACTTTGTACCAGGGGTAGGCCCCGGACACTGATCTA
CAACATGGATAAATATGATGATCTGGGCCTTGAGGCCAGTAAGTTCATTGAGGACCTGAACATG
TACGAGGCCTCCAAGGATGGGCTCTTCCGGGTGGACAAGGGTGCTAGCAACAACCCCGAATTTG
AGGAAACTCGAAGGGTGTTCGCGACCAAGATGGCCAAAATCCACCTCCAGCAGCAGCAACAGCA
GCAGCTCCTACAGGAGGAGGCCCTACCTAGGGCAGGCAGAAGCCCCATCAACGGTGGGAACCGT
CAGGGTGTGAGCAGCAAGCTGGCTGCAGATGGGGCCGCTAAGCCTCCTCTTGCTGTGCCAACAG
TAGCACCTGGACTAGCTACCACCACTATGGCGGTGCAGTCCTCATACCCACCTCAGGAGCAGAG
GACCAGGCCATCTGCCCACGGTGCAAGGCCTGGCAGTCAGAACTGTGGTTCCAGGGAGGGGCCT
GTGAGTTCCCAGAGACCTGCTTTACACGGTCTGGGTCCCTGTGAAGACCCTTCCTGCCTCACTC
ACGGAGACTATTACGACAATTTCTCTTTGGCAAGCCCACAGTGGGGTGATAAACCAGAAGAGTC
CCCTAGCATGAGTTTGAGTGTAGGGAGTGGATGGCCTGGTTGCCCAGGAAATGATTCCCTGTCG
CACAGATCCTGTGGGGACAGTCATCCTTACCACCCACAGCTCTCCATGTGCTCTGGCAGGTCTT
TTGAAAGTGGTCAGGACAGTGGCATTGGTGGCCATAGCAGTGAGAAGCCAACAGGCCTTTGGTC
CACTGCCTCCTCTCAGAGAGTGAACCTGGGCTTTTCTTCCACGGGCTTGGAGAATGGGACCCCA
GCTCAACCCAAGGGCACAACCGTTTCAGCACCAATGGTCCCTAGCAGCACTAGCCAAGGCGCTT
GTCTGAGAAGAGATTCGAGTCTGGGATATGAGGCTCCAGGCAGGGTCTTCAAACCTCTTGTGGA
CACTCAGCCTTGGCTCCAGGATGGGCCCAAGTCGTACCTCTCTGTTTCTGCTCCACTATCCTCA
ACAACCAGCAAGGACAATGCCCAGACAGGTATGACCGCTGGACTGGATCCTAAGCTTGGATGTG
TGGAGTCTGGCACTAGTCCCAAGCCCAGCCCCACCAGTAACGTCCATCCGGTAATGTCTGCTCC
GTCTGAGTTATCTTGTAAAGAGAGTCCTCCCAGCTGGTCCACTGACAGTAGCCTGGGACCTGTG
CTCCCAGAGAGCCCCACCCCCTCCAGGGTGAGGTTGCCCTGCCAGACCCTCACGCCAGGCCCCG
AGCTTGGACCCTCCACTGCGGAATTGAAGTTGGAAGCCCTCACCCAGCGTCTGGAGCGAGAGAT
GGATGCTCACCCCAAAGCAGACTACTTCGGAGCCTGTGTGAAATGCAGCAAAGGGGTGTTTGGA
GCTGGCCAGGCCTGTCAGGCCATGGGGGATCTCTACCACGATGCCTGCTTCACCTGTGCAGCCT
GCAGCAGGAAGTTAAGAGGAAAGGCCTTCTATTTTGTCAATGGCAAAGTATTCTGTGAGGAAGA
CTTTTTGTACTCTGGCTTTCAGCAGTCTGCGGACAGATGTTTTCTTTGTGGACACCTGATTATG
GACATGATCCTACAGGCCCTAGGGAAGTCCTATCACCCTGGCTGTTTCCGCTGCGTCATCTGCA
ATGAGTGTCTAGATGGGGTTCCTTTCACCGTGGACTCTGAGAACAAGATCTACTGTGTCCGAGA
TTATCACAAGGTGCTGGCCCCCAAGTGTGCAGCCTGTGGCCTTCCCATTCTTCCACCAGAGGGC
TCAGATGAGACCATCAGAGTTGTGTCCATGGACCGAGACTACCATGTAGAGTGCTACCACTGTG
AGGACTGTGGTCTGGAGCTCAATGATGAGGATGGTCACCGCTGCTATCCACTGGAGGACCACCT
GTTCTGTCACTCCTGCCATGTCAAGAGACTGGAGAAAGGACCCTCACCTGCATCCCTCCACCAG
CACCACTTCTAGCAAAGAGACAGTGGGGATGTGGGGCCAGCCTGCCCAGGGAGGTGTCTGTGTA
GCACTTCTGAGCTTCCCCACAGCTGGGGCACAGGAAGAGGAGGGACAGGAAGTTGAGTTCCTGT
GTGTGTGAAGGGTATCATTCTTTTAACCACAGCAGTGTGCACTCCCCATCCTGTCCGTGTGTTT
TCCAAGTGCTTTTCTCTATTGCCACACTCTCGCCAAATCACTCAGGAAGATGCTCCAACTTGCA
CATGACACAAGATGGGGTCTGTGTAACTGGACACATCCTACTCCCTGGAAACAGGTTTTCAGAT
TGTGTTGGGCATATTCCACAGTGTCCCTAAAGAGAAACAATGGTGGAGGTGAGCAGGAGAATGC
CTGCACCCAGATAACCCTCACACAGCCTGTGCTGTGACTTCACAGTTCTGTCCACTTCAGAGCT
TTAGTTCTTCTGAGGATGCTTCAAACCCTTAACTGCATTACAGCAGGAAAGAAGTACTGCATAT
ATTTGCTTTGTACCTTGGAGTTTGCTTGGTGAAAGAGAGCCAAGCTTAGACATCTGGGAGGCTG
GGTCTCCCTGCTGTGCCTCTGCAGTTCCTGCTGCACCTAAGGCAGTGGAGCTGGGGCAGAGGCC
TGCCCTGCCCTGCCCTGCCCTGCCCTGCCCTGCCCTGTCCTATATAGCCAGCTCAGAGAGAACT
GGTGCAGGCACCAGGCTTCTTGTCCATGCTTGGTGCTGTGTTTTCATTGCTTCCTCCAGTCTGT
GACATTGGAGTTGCTTCCTCAAGGCGAGTCTGAGGATCTCATGCGCTCAGATCCCTGTCAAAGG
TTGGGAATCCTAGTCCATATCCTGGGAGAGAGCTCCTTCCAGAAGGAAAGTGTTGTGTGTGAGA
TCTCAAAGCTAGCACCAGAGGGAGTGCCTGAGCTTGTTTCACAGGCATCTCTCTCGGCCACCTC
TCAGCACAGACATTCGTTTGGTTTGATGAAACCAATATAAGGTACACTGCTTTAGTCTGGTTTT
TATTCCTTTGTTATTTCTCTCTACCTTTTCCCACACACAAAACATACCTCACAGATAGTTTTCA
CCAATCACAGATCAGAGAGGAATTCATCCATCATATGGAGACTGTTGGTGTATCAGCAGTGGCC
AGCTCCAACTCTTCACTACAGCTGAGCAGTACAGCTGCAGCACGAGGCCTTCTGAGAGAAGAAG
CAACTGAAATCAACTCTCTGCCTCGTGTGCCTCTGCATTACTGGTCCTGGGGTAGCCAGGCTAA
GAGGGAGACCACATGCTGACAACATTAGGACCACCTCCGAGGTGGATCTGTGGGCATACCTGTC
CTCCCAACATTTGAGAAGTTGAAGTTTGTGAAGTAGAAGTTTAAGGCTGTCCTCAAATACATGA
GGCCATGACCTCACTCAGAAAAACTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_039081663 ⟹ XP_038937591

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	131,998,262 - 132,045,924 (+)	NCBI
mRatBN7.2	8	123,121,363 - 123,168,476 (+)	NCBI

RefSeq Acc Id:

XM_063265665 ⟹ XP_063121735

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	131,998,262 - 132,045,924 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001106208	(Get FASTA)	NCBI Sequence Viewer
	XP_038937591	(Get FASTA)	NCBI Sequence Viewer
	XP_063121735	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI68666	(Get FASTA)	NCBI Sequence Viewer
	B5DEH0	(Get FASTA)	NCBI Sequence Viewer
	EDL76759	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000006554
	ENSRNOP00000006554.5

RefSeq Acc Id:

NP_001106208 ⟸ NM_001112737

- UniProtKB:

B5DEH0 (UniProtKB/Swiss-Prot), A0A8I6A6E6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MDKYDDLGLEASKFIEDLNMYEASKDGLFRVDKGASNNPEFEETRRVFATKMAKIHLQQQQQQQ
LLQEEALPRAGRSPINGGNRQGVSSKLAADGAAKPPLAVPTVAPGLATTTMAVQSSYPPQEQRT
RPSAHGARPGSQNCGSREGPVSSQRPALHGLGPCEDPSCLTHGDYYDNFSLASPQWGDKPEESP
SMSLSVGSGWPGCPGNDSLSHRSCGDSHPYHPQLSMCSGRSFESGQDSGIGGHSSEKPTGLWST
ASSQRVNLGFSSTGLENGTPAQPKGTTVSAPMVPSSTSQGACLRRDSSLGYEAPGRVFKPLVDT
QPWLQDGPKSYLSVSAPLSSTTSKDNAQTGMTAGLDPKLGCVESGTSPKPSPTSNVHPVMSAPS
ELSCKESPPSWSTDSSLGPVLPESPTPSRVRLPCQTLTPGPELGPSTAELKLEALTQRLEREMD
AHPKADYFGACVKCSKGVFGAGQACQAMGDLYHDACFTCAACSRKLRGKAFYFVNGKVFCEEDF
LYSGFQQSADRCFLCGHLIMDMILQALGKSYHPGCFRCVICNECLDGVPFTVDSENKIYCVRDY
HKVLAPKCAACGLPILPPEGSDETIRVVSMDRDYHVECYHCEDCGLELNDEDGHRCYPLEDHLF
CHSCHVKRLEKGPSPASLHQHHF

hide sequence

Ensembl Acc Id:

ENSRNOP00000006554 ⟸ ENSRNOT00000006554

RefSeq Acc Id:	XP_038937591 ⟸ XM_039081663
- Peptide Label:	isoform X1
- UniProtKB:	B5DEH0 (UniProtKB/Swiss-Prot), A0A8I6A6E6 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000087744 ⟸ ENSRNOT00000117859

RefSeq Acc Id:	XP_063121735 ⟸ XM_063265665
- Peptide Label:	isoform X2

Protein Domains

LIM zinc-binding

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B5DEH0-F1-model_v2	AlphaFold	B5DEH0	1-663	view protein structure

Transcriptome

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

Promoters

RGD ID:

13696409

Promoter ID:

EPDNEW_R6934

Type:

initiation region

Name:

Limd1_1

Description:

LIM domains containing 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	8	132,553,127 - 132,553,187	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309830	AgrOrtholog
BioCyc Gene	G2FUF-28614	BioCyc
Ensembl Genes	ENSRNOG00000004837	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000006554	ENTREZGENE
	ENSRNOT00000006554.8	UniProtKB/Swiss-Prot
Gene3D-CATH	Cysteine Rich Protein	UniProtKB/Swiss-Prot
InterPro	Ajuba-like	UniProtKB/Swiss-Prot
	Ajuba-like_LIM1	UniProtKB/Swiss-Prot
	Ajuba-like_LIM2	UniProtKB/Swiss-Prot
	Ajuba-like_LIM3	UniProtKB/Swiss-Prot
	Znf_LIM	UniProtKB/Swiss-Prot
KEGG Report	rno:316101	UniProtKB/Swiss-Prot
NCBI Gene	316101	ENTREZGENE
PANTHER	LIM DOMAIN-CONTAINING PROTEIN JUB	UniProtKB/Swiss-Prot
	PTHR24219:SF3	UniProtKB/Swiss-Prot
Pfam	LIM	UniProtKB/Swiss-Prot
PhenoGen	Limd1	PhenoGen
PROSITE	LIM_DOMAIN_1	UniProtKB/Swiss-Prot
	LIM_DOMAIN_2	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000004837	RatGTEx
SMART	LIM	UniProtKB/Swiss-Prot
Superfamily-SCOP	Glucocorticoid receptor-like (DNA-binding domain)	UniProtKB/Swiss-Prot
UniProt	A0A8I6A6E6	ENTREZGENE, UniProtKB/TrEMBL
	B5DEH0	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-01-28	Limd1	LIM domain containing 1	Limd1	LIM domains containing 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Limd1	LIM domains containing 1	Limd1_predicted	LIM domains containing 1 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Limd1_predicted	LIM domains containing 1 (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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