Limk1 (LIM domain kinase 1) - Rat Genome Database

Name: Limk1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Limk1 (LIM domain kinase 1) Rattus norvegicus

Analyze

Symbol:

Limk1

Name:

LIM domain kinase 1

RGD ID:

62055

Description:

Predicted to enable heat shock protein binding activity and protein serine/threonine kinase activity. Predicted to be involved in actin cytoskeleton organization; positive regulation of axon extension; and positive regulation of stress fiber assembly. Located in axonal growth cone and perinuclear region of cytoplasm. Orthologous to human LIMK1 (LIM domain kinase 1); PARTICIPATES IN insulin responsive facilitative sugar transporter mediated glucose transport pathway; Rab family mediated signaling pathway; Fc gamma receptor mediated signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3,3',4,4',5-pentachlorobiphenyl.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LIM motif-containing protein kinase 1; LIM-domain containing protein kinase; LIM-domain containing protein kinase 1; LIM-domain containing, protein kinase 1; LIMK-1

RGD Orthologs

Alliance Genes

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):	LIMK1 (LIM domain kinase 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Limk1 (LIM domain kinase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Limk1 (LIM domain kinase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LIMK1 (LIM domain kinase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LIMK1 (LIM domain kinase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101971716 (eukaryotic translation initiation factor 4H)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LIMK1 (LIM domain kinase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LIMK1 (LIM domain kinase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Limk1 (LIM domain kinase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	AIMP2 (aminoacyl tRNA synthetase complex interacting multifunctional protein 2)	HGNC	OMA
Alliance orthologs ³
Mus musculus (house mouse):	Limk1 (LIM domain kinase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	LIMK1 (LIM domain kinase 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	limk1b (LIM domain kinase 1b)	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	limk1a (LIM domain kinase 1a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	LIMK1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	limk1	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	27,663,177 - 27,697,085 (+)	NCBI		GRCr8
mRatBN7.2	12	22,026,697 - 22,060,605 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	22,026,672 - 22,060,606 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	23,167,689 - 23,203,752 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	23,780,037 - 23,814,843 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	22,847,911 - 22,881,485 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	25,036,630 - 25,070,538 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	25,036,605 - 25,070,539 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	27,037,250 - 27,070,939 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	23,091,809 - 23,125,717 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	22,951,901 - 22,985,835 (+)	NCBI
Celera	12	23,790,979 - 23,824,570 (+)	NCBI		Celera
Cytogenetic Map	12	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autism spectrum disorder (ISO)

autistic disorder (ISO)

genetic disease (ISO)

High Myopia (ISO)

intestinal volvulus (ISO)

Neurodevelopmental Disorders (ISO)

pleomorphic xanthoastrocytoma (ISO)

schizophrenia (ISO)

supravalvular aortic stenosis (ISO)

Volvulus Of Midgut (ISO)

Williams-Beuren syndrome (ISO,ISS)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(1->4)-beta-D-glucan (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

2,3,7,8-Tetrachlorodibenzofuran (EXP)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3,3',4,4'-tetrachlorobiphenyl (ISO)

3,4-methylenedioxymethamphetamine (ISO)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (EXP,ISO)

5-fluorouracil (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

all-trans-retinoic acid (ISO)

amitrole (EXP)

ammonium chloride (EXP)

amphetamine (EXP)

amphotericin B (ISO)

aristolochic acid A (ISO)

Aroclor 1254 (EXP)

benzene (ISO)

benzo[a]pyrene (ISO)

Benzo[k]fluoranthene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (EXP,ISO)

C60 fullerene (EXP)

caffeine (ISO)

carbon nanotube (ISO)

cisplatin (ISO)

clofibrate (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

dextran sulfate (ISO)

diallyl disulfide (ISO)

dichlorine (EXP)

dicrotophos (ISO)

doxorubicin (EXP,ISO)

ethanol (ISO)

excitatory amino acid agonist (EXP)

fenvalerate (EXP)

fipronil (EXP)

folic acid (ISO)

fulvestrant (ISO)

genistein (ISO)

gentamycin (EXP)

glyphosate (ISO)

hydrogen peroxide (ISO)

inulin (ISO)

lipopolysaccharide (ISO)

methimazole (EXP)

methoxychlor (EXP)

methylmercury(1+) (ISO)

monosodium L-glutamate (ISO)

N-methyl-4-phenylpyridinium (ISO)

ouabain (ISO)

ozone (EXP)

paracetamol (EXP,ISO)

paraquat (EXP)

perfluorooctane-1-sulfonic acid (ISO)

phenobarbital (ISO)

pirinixic acid (EXP,ISO)

pregnenolone 16alpha-carbonitrile (EXP)

probucol (ISO)

resveratrol (ISO)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

Sanggenon C (EXP)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

tacrolimus hydrate (ISO)

tamoxifen (ISO)

tert-butyl hydroperoxide (ISO)

theophylline (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichloroethene (ISO)

triptonide (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Y-27632 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin cytoskeleton organization (IBA,IEA)

axon extension (IEA,ISO)

positive regulation of actin filament bundle assembly (ISO)

positive regulation of axon extension (IEA,ISO,ISS)

positive regulation of stress fiber assembly (IBA,IEA,ISO)

stress fiber assembly (IEA,ISO)

Cellular Component

axonal growth cone (IDA)

cytoplasm (IBA,IEA,ISO,ISS)

cytoskeleton (IEA)

cytosol (IEA,ISO)

focal adhesion (IEA,ISO)

lamellipodium (IEA,ISO,ISS)

male germ cell nucleus (IEA,ISO)

membrane (IEA,ISO)

neuron projection (IBA,IEA,ISO,ISS)

nuclear speck (IEA,ISO)

nucleus (IBA,IEA,ISO)

perinuclear region of cytoplasm (IDA)

Molecular Function

ATP binding (IEA)

heat shock protein binding (IEA,ISO)

metal ion binding (IEA)

protein binding (ISO)

protein serine kinase activity (IEA)

protein serine/threonine kinase activity (IBA,IEA,ISO,ISS)

Molecular Pathway Annotations Click to see Annotation Detail View

Fc gamma receptor mediated signaling pathway (IEA)

insulin responsive facilitative sugar transporter mediated glucose transport pathway (IMP)

Rab family mediated signaling pathway (IMP)

References

References - curated

#	Reference Title	Reference Citation
1.	Arp2/3- and cofilin-coordinated actin dynamics is required for insulin-mediated GLUT4 translocation to the surface of muscle cells.	Chiu TT, etal., Mol Biol Cell. 2010 Oct 15;21(20):3529-39. doi: 10.1091/mbc.E10-04-0316. Epub 2010 Aug 25.
2.	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.
3.	LIM kinase and Diaphanous cooperate to regulate serum response factor and actin dynamics.	Geneste O, etal., J Cell Biol 2002 May 27;157(5):831-8.
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	LIMK-1 and LIMK-2, two members of a LIM motif-containing protein kinase family.	Nunoue K, etal., Oncogene 1995 Aug 17;11(4):701-10.
7.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
11.	LIMK1 regulates Golgi dynamics, traffic of Golgi-derived vesicles, and process extension in primary cultured neurons.	Rosso S, etal., Mol Biol Cell. 2004 Jul;15(7):3433-49. Epub 2004 Apr 16.
12.	Tentative Sequence Identification Numbers	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data

Additional References at PubMed

PMID:8889548	PMID:15023529	PMID:15176434	PMID:15199148	PMID:16204183	PMID:16399995	PMID:16651380	PMID:16963613	PMID:17512523	PMID:18171679	PMID:20696146	PMID:22328514
PMID:23086941	PMID:23600483	PMID:23633677	PMID:24792215	PMID:24962708	PMID:25107909	PMID:27973945	PMID:28116173	PMID:32697981	PMID:33559936

Genomics

Comparative Map Data

Limk1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	27,663,177 - 27,697,085 (+)	NCBI		GRCr8
mRatBN7.2	12	22,026,697 - 22,060,605 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	22,026,672 - 22,060,606 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	23,167,689 - 23,203,752 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	23,780,037 - 23,814,843 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	22,847,911 - 22,881,485 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	25,036,630 - 25,070,538 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	25,036,605 - 25,070,539 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	27,037,250 - 27,070,939 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	23,091,809 - 23,125,717 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	22,951,901 - 22,985,835 (+)	NCBI
Celera	12	23,790,979 - 23,824,570 (+)	NCBI		Celera
Cytogenetic Map	12	q12	NCBI

LIMK1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	74,083,804 - 74,122,525 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	74,082,933 - 74,122,525 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	73,498,134 - 73,536,855 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	73,136,092 - 73,174,790 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	72,942,806 - 72,981,505	NCBI
Celera	7	68,977,591 - 69,016,280 (+)	NCBI		Celera
Cytogenetic Map	7	q11.23	NCBI
HuRef	7	69,382,814 - 69,418,976 (+)	NCBI		HuRef
CHM1_1	7	73,643,562 - 73,682,183 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	75,286,937 - 75,325,667 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	72,831,179 - 72,869,927 (+)	NCBI

Limk1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	134,684,893 - 134,718,713 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	134,684,893 - 134,717,452 (-)	Ensembl		GRCm39 Ensembl
GRCm38	5	134,656,039 - 134,689,859 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	134,656,039 - 134,688,598 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	135,131,909 - 135,164,460 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	134,940,679 - 134,991,269 (-)	NCBI		MGSCv36	mm8
Celera	5	131,664,058 - 131,696,609 (-)	NCBI		Celera
Cytogenetic Map	5	G2	NCBI
cM Map	5	74.73	NCBI

Limk1
(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_004955456	13,750,889 - 13,774,021 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955456	13,751,135 - 13,773,722 (-)	NCBI	ChiLan1.0	ChiLan1.0

LIMK1
(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	6	90,777,071 - 90,815,787 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	139,041,703 - 139,080,418 (-)	NCBI		NHGRI_mPanPan1
PanPan1.1	7	81,233,453 - 81,271,282 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	81,231,876 - 81,271,282 (+)	Ensembl	panpan1.1		panPan2

LIMK1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	6,263,374 - 6,285,734 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	6,264,548 - 6,286,026 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	7,959,877 - 7,983,548 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	6,076,858 - 6,100,527 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	6,078,155 - 6,100,709 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	6,067,274 - 6,090,947 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	6,015,097 - 6,038,762 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	6,178,780 - 6,202,457 (-)	NCBI		UU_Cfam_GSD_1.0

LOC101971716
(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_024409344	130,788,070 - 130,851,137 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936543	3,224,392 - 3,248,526 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0 Ensembl	NW_004936543	3,185,201 - 3,208,388 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936543	3,190,741 - 3,208,232 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LIMK1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	11,252,648 - 11,279,284 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	11,252,820 - 11,279,286 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	10,936,786 - 10,961,582 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LIMK1
(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	28	8,953,095 - 8,988,848 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	28	8,952,957 - 8,988,672 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666070	7,555,472 - 7,591,095 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Limk1
(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_004624740	13,823,437 - 13,847,808 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624740	13,824,930 - 13,847,605 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Limk1
281 total Variants

miRNA Target Status

Confirmed Target Of

miRNA Gene	Mature miRNA	Method Name	Result Type	Data Type	Support Type	PMID
Mir134	rno-miR-134-5p	Mirtarbase	external_info	Luciferase reporter assay//Northern blot//qRT-PCR	Functional MTI	16421561

Predicted Target Of

	Summary Value
Count of predictions:	165
Count of miRNA genes:	113
Interacting mature miRNAs:	128
Transcripts:	ENSRNOT00000001996
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
10755457	Coatc14	Coat color QTL 14		0.01759	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	12	1	22591684	Rat
6893681	Bw109	Body weight QTL 109	2.3	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	12	1	23297788	Rat
1581516	Cm56	Cardiac mass QTL 56	4.2	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	12	1	29333307	Rat
1598855	Bp294	Blood pressure QTL 294	3.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	1	34851688	Rat
7411660	Foco28	Food consumption QTL 28	10.9	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
9590086	Insglur6	Insulin/glucose ratio QTL 6	18.97	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	12	1	42110980	Rat
8694179	Bw150	Body weight QTL 150	2.9	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
7411586	Foco5	Food consumption QTL 5	5.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
7411595	Foco9	Food consumption QTL 9	4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
7411545	Bw128	Body weight QTL 128	5.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
9590147	Scort7	Serum corticosterone level QTL 7	13.61	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	12	1	42110980	Rat
2303575	Insul14	Insulin level QTL 14	4		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	12	1	42450532	Rat
737979	Pia22	Pristane induced arthritis QTL 22	53.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	1	44465750	Rat
634351	Apr5	Acute phase response QTL 5	6.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	12	1	44503507	Rat
2302042	Pia38	Pristane induced arthritis QTL 38	3.5	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	1	44503507	Rat
634350	Apr4	Acute phase response QTL 4	6		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	1172005	46172005	Rat
8552918	Pigfal7	Plasma insulin-like growth factor 1 level QTL 7			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
7411547	Bw129	Body weight QTL 129		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	5564495	46669029	Rat
7411597	Foco10	Food consumption QTL 10		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
7411641	Foco19	Food consumption QTL 19	27.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
8552964	Pigfal17	Plasma insulin-like growth factor 1 level QTL 17	3.5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
7411588	Foco6	Food consumption QTL 6		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
8552912	Pigfal6	Plasma insulin-like growth factor 1 level QTL 6	5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564498	46669029	Rat
10059594	Kidm46	Kidney mass QTL 46	3.79	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	12	6107579	46669029	Rat
1302792	Scl21	Serum cholesterol level QTL 21	3.8	0.0011	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	12	7196730	46669029	Rat
2293086	Iddm30	Insulin dependent diabetes mellitus QTL 30	3.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	8449490	28302290	Rat
61331	Eau2	Experimental allergic uveoretinitis QTL 2		0.0005	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	12	8525423	28064601	Rat
1300157	Rf21	Renal function QTL 21	4.4		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	12	9318216	32103380	Rat
1549829	Scl48	Serum cholesterol level QTL 48	5		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	12	9603277	46669029	Rat
2293699	Bss49	Bone structure and strength QTL 49	5.61	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	12	10474137	46669029	Rat
2300186	Bmd59	Bone mineral density QTL 59	7.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	12	10474137	46669029	Rat
1331786	Kidm11	Kidney mass QTL 11	3.571		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	12	11073825	24234895	Rat
1331755	Bp219	Blood pressure QTL 219	3.041		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	11073825	28064557	Rat
1331761	Bp218	Blood pressure QTL 218	2.973		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	11073825	45055165	Rat
61404	Bw120	Body weight QTL 120	5.1		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	12	12351619	46669029	Rat
1641928	Alcrsp5	Alcohol response QTL 5			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	12	12812385	46669029	Rat
2303569	Gluco44	Glucose level QTL 44	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	12812385	46669029	Rat
1549902	Bp269	Blood pressure QTL 269			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	13182736	46669029	Rat
1549912	Bp268	Blood pressure QTL 268			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	13182736	46669029	Rat
2302060	Pia37	Pristane induced arthritis QTL 37	6.1	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	13198157	46669029	Rat
61416	Pia4	Pristane induced arthritis QTL 4	8.4		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	12	13635523	30827399	Rat
61421	Cia12	Collagen induced arthritis QTL 12	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	13635523	35682913	Rat
631543	Bp83	Blood pressure QTL 83	5.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	15550826	38478808	Rat
2293684	Bmd26	Bone mineral density QTL 26	4.4	0.0002	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	12	15872653	32974238	Rat
631560	Apr1	Acute phase response QTL 1	6.1		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	19144362	46669029	Rat
2306789	Ean6	Experimental allergic neuritis QTL 6	4.9		nervous system integrity trait (VT:0010566)	experimental autoimmune neuritis severity score (CMO:0001528)	12	19610870	24139202	Rat
737822	Alc10	Alcohol consumption QTL 10	2.2		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	12	19610870	40218516	Rat
5684888	Pia42	Pristane induced arthritis QTL 42			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	19610870	42828880	Rat
61324	Eae5	Experimental allergic encephalomyelitis QTL 5	14		nervous system integrity trait (VT:0010566)	percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)	12	19610870	46669029	Rat
1298081	Cia25	Collagen induced arthritis QTL 25	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	19610889	35682913	Rat
70213	Niddm27	Non-insulin dependent diabetes mellitus QTL 27	3.72		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	19835789	38193007	Rat
631521	Pia12	Pristane induced arthritis QTL 12	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	20259417	23672083	Rat
7411643	Foco20	Food consumption QTL 20		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	20328819	46669029	Rat

Markers in Region

RH142289

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	12	22,060,422 - 22,060,573 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	25,070,356 - 25,070,506	NCBI	Rnor6.0
Rnor_5.0	12	27,070,757 - 27,070,907	UniSTS	Rnor5.0
RGSC_v3.4	12	23,125,535 - 23,125,685	UniSTS	RGSC3.4
Celera	12	23,824,388 - 23,824,538	UniSTS
Cytogenetic Map	12	q12	UniSTS

UniSTS:230793

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	12	22,059,048 - 22,059,399 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	25,068,982 - 25,069,332	NCBI	Rnor6.0
Rnor_5.0	12	27,069,383 - 27,069,733	UniSTS	Rnor5.0
RGSC_v3.4	12	23,124,161 - 23,124,511	UniSTS	RGSC3.4
Celera	12	23,823,014 - 23,823,364	UniSTS
Cytogenetic Map	12	q12	UniSTS

G48114

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	12	22,060,379 - 22,060,533 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	25,070,313 - 25,070,466	NCBI	Rnor6.0
Rnor_5.0	12	27,070,714 - 27,070,867	UniSTS	Rnor5.0
RGSC_v3.4	12	23,125,492 - 23,125,645	UniSTS	RGSC3.4
Celera	12	23,824,345 - 23,824,498	UniSTS
Cytogenetic Map	12	q12	UniSTS

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		22	6	4	7	4			74	18	33	3
Low	3	21	50	36	12	36	8	11		17	8	8	8
Below cutoff			1	1		1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_031727	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006249185	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC091000	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC091537	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC135741	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AW529884	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BF565872	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB691076	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB702103	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB726578	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473973	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CV112377	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	D31873	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000001996 ⟹ ENSRNOP00000001996

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	22,026,672 - 22,060,606 (+)	Ensembl
Rnor_6.0 Ensembl	12	25,036,605 - 25,070,539 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000084427 ⟹ ENSRNOP00000073078

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	22,037,044 - 22,060,606 (+)	Ensembl
Rnor_6.0 Ensembl	12	25,036,630 - 25,070,538 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000118532 ⟹ ENSRNOP00000094337

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	22,036,075 - 22,060,606 (+)	Ensembl

RefSeq Acc Id:

NM_031727 ⟹ NP_113915

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,663,177 - 27,697,085 (+)	NCBI
mRatBN7.2	12	22,026,697 - 22,060,605 (+)	NCBI
Rnor_6.0	12	25,036,630 - 25,070,538 (+)	NCBI
Rnor_5.0	12	27,037,250 - 27,070,939 (+)	NCBI
RGSC_v3.4	12	23,091,809 - 23,125,717 (+)	RGD
Celera	12	23,790,979 - 23,824,570 (+)	RGD

Sequence:

show sequence

CTTCAAGCCTGGTGTGGGAGTGCAGCGGAGCATCATCGCCGAAGCCGGAGCGGAGCGCTCGGCT
CCGGCCCCGCGCTCCCCGCCTCCCGCCTTCTCGGGCCGGCGGCGGGCGAGCTCGCGGGCCCGGC
CCCAGCTCTCCAGTGCCCCGCCGGTTGCCGGCGGTCCCCGCCCCCCGCCGAGTGCATGAGGTTG
ACGCTACTTTGTTGCACCTGGAGGGAAGAACGTATGGGAGAGGAAGGAAGCGAGTTGCCTGTGT
GTGCGAGCTGTAGCCAGAGTATCTATGACGGCCAGTACCTCCAGGCCCTGAATGCTGACTGGCA
TGCGGATTGCTTCAGGTGCTGCGAGTGTAGCACCTCCCTTTCACACCAGTACTACGAGAAGGAT
GGACAGCTCTTCTGCAAGAAGGACTACTGGGCCCGCTATGGCGAGTCTTGCCACGGGTGCTCCG
AACACATCACCAAAGGGCTGGTCATGGTGGCCGGGGAGCTGAAGTATCACCCCGAGTGCTTCAT
CTGCCTTGCCTGTGGAAACTTCATCGGTGATGGGGACACCTACACACTGGTGGAGCACTCCAAG
CTGTACTGCGGGCAGTGCTACTACCAGACTGTGGTAACTCCAGTCATCGAACAGATCCTCCCTG
ACTCACCCGGCTCCCACCTGCCCCACACAGTCACCCTCGTGTCTATCCCAGCCTCTGCTCATGG
CAAACGAGGCCTGTCTGTCTCCATCGACCCCCCTCACGGCCCACCAGGATGTGGCACGGAGCAT
TCGCACACGGTCCGAGTCCAAGGAGTGGACCCGGGCTGCATGAGCCCGGATGTGAAGAATTCCA
TCCACATCGGAGACAGGATCTTGGAAATCAACGGCACGCCCATCCGGAATGTGCCGCTGGACGA
GATCGACTTGCTGATCCAGGAGACCAGCCGCCTGCTCCAGCTGACCCTCGAGCACGACCCCCAT
GACTCACTGGGCCATGGGCCAGTGTCGGATCCCAGCCCCCTGGCCTCCCCGGTACACACTCCCA
GCGGACAGGCAGGCAGCTCTGCCCGGCAGAAACCTGTCTTGAGGAGCTGCAGTATTGACACGTC
CCCGGGTGCCGGCTCACTAGTCTCACCAGCCTCCCAGCGCAAGGACCTGGGTCGCTCCGAATCC
CTCCGAGTGGTTTGTCGACCACACCGCATCTTCCGGCCGTCTGACCTCATCCATGGGGAGGTGT
TGGGCAAGGGCTGTTTCGGCCAGGCCATCAAGGTGACACATCGAGAAACGGGCGAGGTGATGGT
GATGAAGGAACTCATCCGGTTTGACGAGGAGACCCAGAGGACATTCCTCAAGGAGGTGAAGGTC
ATGCGATGCCTGGAGCACCCTAACGTGCTCAAGTTCATCGGCGTGCTGTACAAGGACAAGCGGC
TGAACTTCATCACCGAGTACATCAAGGGCGGCACCCTGCGGGGCATCATCAAGAGCATGGACAG
CCAGTACCCGTGGAGTCAGAGGGTCAGCTTTGCCAAGGACATTGCATCAGGGATGGCCTACCTC
CATTCGATGAACATCATCCACCGAGACCTCAACTCCCACAACTGTCTGGTCCGTGAGAACAGGA
ACGTGGTGGTGGCTGACTTTGGGCTGGCTCGACTCATGATCGATGAGAAGGGTCAGTCTGAAGA
CTTGCGTAGCCTTAAGAAGCCGGACCGCAAGAAACGGTACACAGTGGTGGGTAACCCCTACTGG
ATGGCGCCAGAGATGATCAATGGTCGTAGTTACGATGAAAAGGTGGACGTGTTTTCCTTTGGAA
TTGTCCTTTGTGAGATTATCGGGCGTGTGAATGCAGACCCTGACTATCTGCCCCGCACTATGGA
CTTTGGCCTCAATGTAAGGGGTTTCCTGGACCGCTACTGTCCACCAAACTGTCCCCCAAGTTTC
TTCCCCATCACTGTGCGCTGCTGTGACCTGGATCCTGAGAAGAGGCCCTCTTTTGTAAAGCTGG
AACAATGGCTAGAAACACTTCGCATGCACTTGGCTGGTCACCTGCCACTGGGCCCACAACTGGA
ACAACTGGAGCGGGGCTTCTGGGAGACCTACCGGCGGGGCGAGAGCTCGCTACCCGCCCACCCC
GAGGTCCCTGACTGAGCCCAGTGGGCCCACCATCTTCATCCCCGCCTCTGGAGAATAGACCCTC
ACCAGATTCCTCAGCAGGGGGTGGCCTAGGCATGGAGCCCTCAGCTGGGGCAGTGGTGACCATA
TCCGTACCCCCAGACCTGCCTTTTCCCCTCATGCAGGGTGCCCCCCAGCCTCTCTCTGCCTCTG
GCCCCCAAGTCACAAGGCTGCACACACACGTGGTTGGTCACATCGCCCTGCCTTACCTCCCATT
GTGTGGAGCCACCCCCTCACTTGTCTTTGCATGAGCTGGAGGGTTGGGGAAGCTGAACCCATTC
CATGCAATGCCTGCAGCTGTCTGCACAGCGCACCTGCTGGCAGCTCTTCCCAGCAAGGCTGGGC
CAGAAGGCAGCTTTAGAAGTGAGCCCTGTAAGGCCAAGGGAGAGGCTATGTGCCCGGGAACCCA
AGGGCAGTCCAGGATCCCTTGGGGAAAATCTAGGTAGCATCAGGTATTGACAGGGATCTAAATC
CCAAAGCAGAGAGAGAGAGAGGTCCAGTCCCATGTGGCCAGGCAGTGGCCTTCGCTCTTGCTTC
GTGTCCATCTCATTTCTTGATCAAAGCCACTTTAGTAAGAAGTAGGTACCAGTCCTCAGGATGA
GCCAGGAGCCCTCAGGGGAGAGGGCGGATGATGCCTGGGAACACAGCTGACAGGGAGGGTCCAG
CCCACACCACAGAGGCTAGGCAGAGGGAATGAGGTAGCCATCCACCAGCACCCCAGCCCTCCCG
GTTCATCTCAGCACCCTTCCTGGGCCTCTCCCCGTGGCTGGAGCAGCCCCACCCCCTCCCTGGG
TGCATCTGCCCTCTGAGTTCTTTCTGTGTGATCTATTTTTTAAGAAGAGTTTGTATTATTTTTT
CATAACGGCTGTAGCAGCAGCTGCTGGGGGGGGGTTGGGGGGGTTTGTTTTGTTGTTTTGTTTT
AGGTGGGTGGGGGTGGGAGGGCCATCTCTTCACTCTGCTTCAGTTGAACACCTAGGGACGTATT
AAAACTGTGAAGCTTTCTCAGTGCACTTTGAACATGGAAGAGAATCTGAACCCCCGCGGGACCA
GGACTGAAAGAGGCAAGGCCTGCTTGCCTCGGCCCAGTGACCGTGATAGGAATGAACCCAAACT
CAATAAAATCAATTCTGTGCTCCCCA

hide sequence

RefSeq Acc Id:

XM_006249185 ⟹ XP_006249247

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,665,767 - 27,697,085 (+)	NCBI
mRatBN7.2	12	22,036,310 - 22,060,605 (+)	NCBI
Rnor_6.0	12	25,046,859 - 25,070,538 (+)	NCBI
Rnor_5.0	12	27,037,250 - 27,070,939 (+)	NCBI

Sequence:

show sequence

GCTTCCTGTCACAATTTGAGAAAGAGGCCTTCCTCAGCCGCACTTCTGCCTCCTCCCCGTGGTG
TGGCCACACAGGCCCTACCCCCTGCAACCTCCAATCCTGAGCCCCCACAGTAGGATGGGGAAGC
CTTGGCCAGGCCACCCATGGGCTCCTACAGGCCTCCAGAATCTCCAGACATAGCTGCAGAGAAT
GCAGCCAGCTTTGGCCCTGAGAAGGACCCGCTGCCTCCGTGGGGCTAAGTGCTGCGAGTGTAGC
ACCTCCCTTTCACACCAGTACTACGAGAAGGATGGACAGCTCTTCTGCAAGAAGGACTACTGGG
CCCGCTATGGCGAGTCTTGCCACGGGTGCTCCGAACACATCACCAAAGGGCTGGTCATGGTGGC
CGGGGAGCTGAAGTATCACCCCGAGTGCTTCATCTGCCTTGCCTGTGGAAACTTCATCGGTGAT
GGGGACACCTACACACTGGTGGAGCACTCCAAGCTGTACTGCGGGCAGTGCTACTACCAGACTG
TGGTAACTCCAGTCATCGAACAGATCCTCCCTGACTCACCCGGCTCCCACCTGCCCCACACAGT
CACCCTCGTGTCTATCCCAGCCTCTGCTCATGGCAAACGAGGCCTGTCTGTCTCCATCGACCCC
CCTCACGGCCCACCAGGATGTGGCACGGAGCATTCGCACACGGTCCGAGTCCAAGGAGTGGACC
CGGGCTGCATGAGCCCGGATGTGAAGAATTCCATCCACATCGGAGACAGGATCTTGGAAATCAA
CGGCACGCCCATCCGGAATGTGCCGCTGGACGAGATCGACTTGCTGATCCAGGAGACCAGCCGC
CTGCTCCAGCTGACCCTCGAGCACGACCCCCATGACTCACTGGGCCATGGGCCAGTGTCGGATC
CCAGCCCCCTGGCCTCCCCGGTACACACTCCCAGCGGACAGGCAGGCAGCTCTGCCCGGCAGAA
ACCTGTCTTGAGGAGCTGCAGTATTGACACGTCCCCGGGTGCCGGCTCACTAGTCTCACCAGCC
TCCCAGCGCAAGGACCTGGGTCGCTCCGAATCCCTCCGAGTGGTTTGTCGACCACACCGCATCT
TCCGGCCGTCTGACCTCATCCATGGGGAGGTGTTGGGCAAGGGCTGTTTCGGCCAGGCCATCAA
GGTGACACATCGAGAAACGGGCGAGGTGATGGTGATGAAGGAACTCATCCGGTTTGACGAGGAG
ACCCAGAGGACATTCCTCAAGGAGGTGAAGGTCATGCGATGCCTGGAGCACCCTAACGTGCTCA
AGTTCATCGGCGTGCTGTACAAGGACAAGCGGCTGAACTTCATCACCGAGTACATCAAGGGCGG
CACCCTGCGGGGCATCATCAAGAGCATGGACAGCCAGTACCCGTGGAGTCAGAGGGTCAGCTTT
GCCAAGGACATTGCATCAGGGATGGCCTACCTCCATTCGATGAACATCATCCACCGAGACCTCA
ACTCCCACAACTGTCTGGTCCGTGAGAACAGGAACGTGGTGGTGGCTGACTTTGGGCTGGCTCG
ACTCATGATCGATGAGAAGGGTCAGTCTGAAGACTTGCGTAGCCTTAAGAAGCCGGACCGCAAG
AAACGGTACACAGTGGTGGGTAACCCCTACTGGATGGCGCCAGAGATGATCAATGGTCGTAGTT
ACGATGAAAAGGTGGACGTGTTTTCCTTTGGAATTGTCCTTTGTGAGATTATCGGGCGTGTGAA
TGCAGACCCTGACTATCTGCCCCGCACTATGGACTTTGGCCTCAATGTAAGGGGTTTCCTGGAC
CGCTACTGTCCACCAAACTGTCCCCCAAGTTTCTTCCCCATCACTGTGCGCTGCTGTGACCTGG
ATCCTGAGAAGAGGCCCTCTTTTGTAAAGCTGGAACAATGGCTAGAAACACTTCGCATGCACTT
GGCTGGTCACCTGCCACTGGGCCCACAACTGGAACAACTGGAGCGGGGCTTCTGGGAGACCTAC
CGGCGGGGCGAGAGCTCGCTACCCGCCCACCCCGAGGTCCCTGACTGAGCCCAGTGGGCCCACC
ATCTTCATCCCCGCCTCTGGAGAATAGACCCTCACCAGATTCCTCAGCAGGGGGTGGCCTAGGC
ATGGAGCCCTCAGCTGGGGCAGTGGTGACCATATCCGTACCCCCAGACCTGCCTTTTCCCCTCA
TGCAGGGTGCCCCCCAGCCTCTCTCTGCCTCTGGCCCCCAAGTCACAAGGCTGCACACACACGT
GGTTGGTCACATCGCCCTGCCTTACCTCCCATTGTGTGGAGCCACCCCCTCACTTGTCTTTGCA
TGAGCTGGAGGGTTGGGGAAGCTGAACCCATTCCATGCAATGCCTGCAGCTGTCTGCACAGCGC
ACCTGCTGGCAGCTCTTCCCAGCAAGGCTGGGCCAGAAGGCAGCTTTAGAAGTGAGCCCTGTAA
GGCCAAGGGAGAGGCTATGTGCCCGGGAACCCAAGGGCAGTCCAGGATCCCTTGGGGAAAATCT
AGGTAGCATCAGGTATTGACAGGGATCTAAATCCCAAAGCAGAGAGAGAGAGAGGTCCAGTCCC
ATGTGGCCAGGCAGTGGCCTTCGCTCTTGCTTCGTGTCCATCTCATTTCTTGATCAAAGCCACT
TTAGTAAGAAGTAGGTACCAGTCCTCAGGATGAGCCAGGAGCCCTCAGGGGAGAGGGCGGATGA
TGCCTGGGAACACAGCTGACAGGGAGGGTCCAGCCCACACCACAGAGGCTAGGCAGAGGGAATG
AGGTAGCCATCCACCAGCACCCCAGCCCTCCCGGTTCATCTCAGCACCCTTCCTGGGCCTCTCC
CCGTGGCTGGAGCAGCCCCACCCCCTCCCTGGGTGCATCTGCCCTCTGAGTTCTTTCTGTGTGA
TCTATTTTTTAAGAAGAGTTTGTATTATTTTTTCATAACGGCTGTAGCAGCAGCTGCTGGGGGG
GGGTTGGGGGGGTTTGTTTTGTTGTTTTGTTTTAGGTGGGTGGGGGTGGGAGGGCCATCTCTTC
ACTCTGCTTCAGTTGAACACCTAGGGACGTATTAAAACTGTGAAGCTTTCTCAGTGCACTTTGA
ACATGGAAGAGAATCTGAACCCCCGCGGGACCAGGACTGAAAGAGGCAAGGCCTGCTTGCCTCG
GCCCAGTGACCGTGATAGGAATGAACCCAAACTCAATAAAATCAATTCTGTGCTCCCCA

hide sequence

Protein Sequences


Protein RefSeqs	NP_113915	(Get FASTA)	NCBI Sequence Viewer
	XP_006249247	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	BAA06672	(Get FASTA)	NCBI Sequence Viewer
	EDM13416	(Get FASTA)	NCBI Sequence Viewer
	EDM13417	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000001996
	ENSRNOP00000001996.2
	ENSRNOP00000073078.2
	ENSRNOP00000094337
	ENSRNOP00000094337.1
GenBank Protein	P53669	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_113915 ⟸ NM_031727

- UniProtKB:

P53669 (UniProtKB/Swiss-Prot), G3V663 (UniProtKB/TrEMBL), A6J0H7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MRLTLLCCTWREERMGEEGSELPVCASCSQSIYDGQYLQALNADWHADCFRCCECSTSLSHQYY
EKDGQLFCKKDYWARYGESCHGCSEHITKGLVMVAGELKYHPECFICLACGNFIGDGDTYTLVE
HSKLYCGQCYYQTVVTPVIEQILPDSPGSHLPHTVTLVSIPASAHGKRGLSVSIDPPHGPPGCG
TEHSHTVRVQGVDPGCMSPDVKNSIHIGDRILEINGTPIRNVPLDEIDLLIQETSRLLQLTLEH
DPHDSLGHGPVSDPSPLASPVHTPSGQAGSSARQKPVLRSCSIDTSPGAGSLVSPASQRKDLGR
SESLRVVCRPHRIFRPSDLIHGEVLGKGCFGQAIKVTHRETGEVMVMKELIRFDEETQRTFLKE
VKVMRCLEHPNVLKFIGVLYKDKRLNFITEYIKGGTLRGIIKSMDSQYPWSQRVSFAKDIASGM
AYLHSMNIIHRDLNSHNCLVRENRNVVVADFGLARLMIDEKGQSEDLRSLKKPDRKKRYTVVGN
PYWMAPEMINGRSYDEKVDVFSFGIVLCEIIGRVNADPDYLPRTMDFGLNVRGFLDRYCPPNCP
PSFFPITVRCCDLDPEKRPSFVKLEQWLETLRMHLAGHLPLGPQLEQLERGFWETYRRGESSLP
AHPEVPD

hide sequence

RefSeq Acc Id:	XP_006249247 ⟸ XM_006249185
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6GL45 (UniProtKB/TrEMBL), A0A0G2K4K5 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQPALALRRTRCLRGAKCCECSTSLSHQYYEKDGQLFCKKDYWARYGESCHGCSEHITKGLVMV AGELKYHPECFICLACGNFIGDGDTYTLVEHSKLYCGQCYYQTVVTPVIEQILPDSPGSHLPHT VTLVSIPASAHGKRGLSVSIDPPHGPPGCGTEHSHTVRVQGVDPGCMSPDVKNSIHIGDRILEI NGTPIRNVPLDEIDLLIQETSRLLQLTLEHDPHDSLGHGPVSDPSPLASPVHTPSGQAGSSARQ KPVLRSCSIDTSPGAGSLVSPASQRKDLGRSESLRVVCRPHRIFRPSDLIHGEVLGKGCFGQAI KVTHRETGEVMVMKELIRFDEETQRTFLKEVKVMRCLEHPNVLKFIGVLYKDKRLNFITEYIKG GTLRGIIKSMDSQYPWSQRVSFAKDIASGMAYLHSMNIIHRDLNSHNCLVRENRNVVVADFGLA RLMIDEKGQSEDLRSLKKPDRKKRYTVVGNPYWMAPEMINGRSYDEKVDVFSFGIVLCEIIGRV NADPDYLPRTMDFGLNVRGFLDRYCPPNCPPSFFPITVRCCDLDPEKRPSFVKLEQWLETLRMH LAGHLPLGPQLEQLERGFWETYRRGESSLPAHPEVPD hide sequence

RefSeq Acc Id:

ENSRNOP00000073078 ⟸ ENSRNOT00000084427

RefSeq Acc Id:

ENSRNOP00000001996 ⟸ ENSRNOT00000001996

RefSeq Acc Id:

ENSRNOP00000094337 ⟸ ENSRNOT00000118532

Protein Domains

LIM zinc-binding PDZ Protein kinase

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P53669-F1-model_v2	AlphaFold	P53669	1-647	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698574

Promoter ID:

EPDNEW_R9092

Type:

multiple initiation site

Name:

Limk1_1

Description:

LIM domain kinase 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	12	25,036,596 - 25,036,656	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:62055	AgrOrtholog
BioCyc Gene	G2FUF-19583	BioCyc
Ensembl Genes	ENSRNOG00000001470	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000001996	ENTREZGENE
	ENSRNOT00000001996.5	UniProtKB/TrEMBL
	ENSRNOT00000084427.2	UniProtKB/TrEMBL
	ENSRNOT00000118532.1	UniProtKB/TrEMBL
Gene3D-CATH	2.30.42.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cysteine Rich Protein	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Transferase(Phosphotransferase) domain 1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro	Kinase-like_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PDZ	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PDZ_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Prot_kinase_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Protein_kinase_ATP_BS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Ser-Thr/Tyr_kinase_cat_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_LIM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:65172	UniProtKB/TrEMBL
NCBI Gene	65172	ENTREZGENE
PANTHER	LIM DOMAIN KINASE 1	UniProtKB/Swiss-Prot
	LIM DOMAIN KINASE 1	UniProtKB/Swiss-Prot
	LIM DOMAIN KINASE 1	UniProtKB/TrEMBL
	LIM DOMAIN KINASE 1	UniProtKB/TrEMBL
Pfam	LIM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PDZ	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Pkinase_Tyr	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Limk1	PhenoGen
PRINTS	TYRKINASE	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	LIM_DOMAIN_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	LIM_DOMAIN_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PDZ	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PROTEIN_KINASE_ATP	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PROTEIN_KINASE_DOM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000001470	RatGTEx
SMART	LIM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PDZ	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	Glucocorticoid receptor-like (DNA-binding domain)	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF50156	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF56112	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR	TC222352
UniProt	A0A0G2K4K5	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6GL45	ENTREZGENE, UniProtKB/TrEMBL
	A6J0H7	ENTREZGENE, UniProtKB/TrEMBL
	G3V663	ENTREZGENE, UniProtKB/TrEMBL
	LIMK1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-12	Limk1	LIM domain kinase 1	Limk1	LIM motif-containing protein kinase 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2002-06-10	Limk1	LIM motif-containing protein kinase 1			Name updated	70584	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_expression	expressed predominantly in the brain	61653
gene_process	activates serum response factor (SRF)	729105

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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - MGI

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

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RGD Manual Annotations

Imported Annotations - KEGG (archival)