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Gene: Lrrtm1 (leucine rich repeat transmembrane neuronal 1) Rattus norvegicus

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Symbol:

Lrrtm1

Name:

leucine rich repeat transmembrane neuronal 1

RGD ID:

1585921

Description:

Predicted to enable signaling receptor activity. Involved in regulation of postsynaptic density assembly and regulation of presynapse assembly. Acts upstream of or within synapse organization. Located in excitatory synapse. Is active in glutamatergic synapse and postsynaptic membrane. Orthologous to human LRRTM1 (leucine rich repeat transmembrane neuronal 1); INTERACTS WITH 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

leucine-rich repeat transmembrane neuronal protein 1; LOC679668; similar to leucine-rich repeat transmembrane neuronal 1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

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	4	111,246,213 - 111,295,638 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	111,235,054 - 111,276,818 (+)	Ensembl				GRCr8
mRatBN7.2	4	109,701,815 - 109,718,924 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	109,701,815 - 109,717,184 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	115,107,415 - 115,122,780 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	110,882,531 - 110,897,892 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	109,502,694 - 109,518,062 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	108,300,927 - 108,316,373 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	108,301,129 - 108,316,373 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	173,006,611 - 173,022,018 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	111,166,760 - 111,182,344 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	98,746,001 - 98,761,096 (+)	NCBI		Celera
Cytogenetic Map	4	q33	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

schizophrenia (ISS)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17beta-estradiol 3-benzoate (EXP)

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

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

2,4-D (ISO)

3,4-methylenedioxymethamphetamine (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (EXP,ISO)

aldehydo-D-glucose (ISO)

all-trans-retinoic acid (ISO)

arsenite(3-) (ISO)

belinostat (ISO)

bisphenol A (EXP)

carbamazepine (ISO)

CGP 52608 (ISO)

choline (ISO)

D-glucose (ISO)

dimethylarsinic acid (EXP)

dorsomorphin (ISO)

ethanol (ISO)

folic acid (ISO)

fructose (ISO)

glucose (ISO)

L-methionine (ISO)

panobinostat (ISO)

progesterone (ISO)

SB 431542 (ISO)

sodium arsenite (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

triclosan (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

exploration behavior (ISO)

locomotory behavior (ISO)

long-term synaptic potentiation (ISO)

negative regulation of receptor internalization (ISO)

positive regulation of synapse assembly (IBA,ISO)

protein localization to synapse (ISO)

regulation of postsynaptic density assembly (IDA,IMP)

regulation of presynapse assembly (IDA,IMP)

synapse organization (IDA,IEA,ISO)

Cellular Component

axon (ISO)

cell surface (ISO)

endoplasmic reticulum (ISO)

excitatory synapse (IDA)

GABA-ergic synapse (ISO)

glutamatergic synapse (IDA,IMP)

growth cone (ISO)

plasma membrane (IBA,IEA)

postsynaptic membrane (IDA,IEA,IMP)

postsynaptic specialization membrane (ISO)

Molecular Function

signaling receptor activity (IBA)

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.	An unbiased expression screen for synaptogenic proteins identifies the LRRTM protein family as synaptic organizers.	Linhoff MW, etal., Neuron. 2009 Mar 12;61(5):734-49. doi: 10.1016/j.neuron.2009.01.017.
3.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	A Modular Organization of LRR Protein-Mediated Synaptic Adhesion Defines Synapse Identity.	Schroeder A, etal., Neuron. 2018 Jul 25;99(2):329-344.e7. doi: 10.1016/j.neuron.2018.06.026. Epub 2018 Jul 5.

Additional References at PubMed

PMID:17667961	PMID:21788371	PMID:21818371	PMID:23089646	PMID:23931994	PMID:24613359	PMID:27565350	PMID:35699802

Genomics

Comparative Map Data

Lrrtm1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	111,246,213 - 111,295,638 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	111,235,054 - 111,276,818 (+)	Ensembl				GRCr8
mRatBN7.2	4	109,701,815 - 109,718,924 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	109,701,815 - 109,717,184 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	115,107,415 - 115,122,780 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	110,882,531 - 110,897,892 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	109,502,694 - 109,518,062 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	108,300,927 - 108,316,373 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	108,301,129 - 108,316,373 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	173,006,611 - 173,022,018 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	111,166,760 - 111,182,344 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	98,746,001 - 98,761,096 (+)	NCBI		Celera
Cytogenetic Map	4	q33	NCBI

LRRTM1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	80,288,356 - 80,304,752 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	80,288,351 - 80,304,752 (-)	Ensembl			hg38	GRCh38
GRCh37	2	80,529,003 - 80,531,877 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	80,382,514 - 80,384,998 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	2	80,436,963 - 80,443,510	NCBI
Celera	2	80,357,641 - 80,360,125 (-)	NCBI		Celera
Cytogenetic Map	2	p12	NCBI
HuRef	2	80,264,234 - 80,266,718 (-)	NCBI		HuRef
CHM1_1	2	80,458,756 - 80,461,240 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	80,302,025 - 80,304,899 (-)	NCBI		T2T-CHM13v2.0

Lrrtm1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	77,192,762 - 77,236,898 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	77,219,672 - 77,234,774 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	6	77,229,210 - 77,259,915 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	77,242,689 - 77,257,791 (+)	Ensembl			mm10	GRCm38
MGSCv37	6	77,192,711 - 77,195,511 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	6	77,172,238 - 77,187,272 (+)	NCBI		MGSCv36	mm8
Celera	6	79,273,556 - 79,276,356 (+)	NCBI		Celera
Cytogenetic Map	6	C3	NCBI
cM Map	6	33.89	NCBI

Lrrtm1
(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_004955424	6,322,284 - 6,337,550 (+)	Ensembl
ChiLan1.0	NW_004955424	6,322,284 - 6,337,550 (+)	NCBI	ChiLan1.0	ChiLan1.0

LRRTM1
(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	12	46,047,115 - 46,063,509 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	46,050,330 - 46,066,263 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	80,376,582 - 80,392,899 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	81,940,008 - 81,956,386 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	81,953,891 - 81,955,459 (-)	Ensembl			panPan2	panpan1.1

LRRTM1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	43,833,906 - 43,842,911 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	43,834,562 - 43,836,130 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	43,529,484 - 43,532,366 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	44,646,891 - 44,649,819 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	44,646,870 - 44,649,817 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	43,729,863 - 43,732,734 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	43,765,294 - 43,768,169 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	44,269,225 - 44,272,140 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Lrrtm1
(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_024406292	4,806,393 - 4,822,627 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936556	5,928,622 - 5,931,499 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936556	5,915,265 - 5,934,004 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LRRTM1
(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	63,587,499 - 63,590,405 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	3	63,585,784 - 63,590,368 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	66,675,615 - 66,678,394 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LRRTM1
(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	14	26,926,681 - 26,929,347 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	26,927,470 - 26,929,038 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666045	85,377,470 - 85,380,341 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lrrtm1
(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_004624749	22,695,241 - 22,698,604 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624749	22,695,726 - 22,698,161 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Lrrtm1
(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	6	69,060,391 - 69,076,147 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Lrrtm1
272 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	419
Count of miRNA genes:	233
Interacting mature miRNAs:	273
Transcripts:	ENSRNOT00000007993
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
1582232	Gluco25	Glucose level QTL 25	3.6	0.0023	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	86583980	149763391	Rat
631689	Scl4	Serum cholesterol level QTL 4	1.9	0.008	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	4	96731383	141731383	Rat
2302049	Pia32	Pristane induced arthritis QTL 32	5.1	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	107346299	152346299	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	39431983	123203361	Rat
1578655	Bmd11	Bone mineral density QTL 11	11		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	4	92406430	137406430	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	27730518	170099664	Rat
1357342	Bw40	Body weight QTL 40		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	4	74233320	119233320	Rat
631556	Bp135	Blood pressure QTL 135		0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	80212111	119233320	Rat
2306547	Iddm38	Insulin dependent diabetes mellitus QTL 38			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	68353567	113353567	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	26234499	134199155	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	60916264	184426481	Rat
2306545	Iddm39	Insulin dependent diabetes mellitus QTL 39			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	78687630	123687630	Rat
70167	Bw22	Body weight QTL 22	3.1		body mass (VT:0001259)	body weight (CMO:0000012)	4	74233320	119233320	Rat
634335	Anxrr16	Anxiety related response QTL 16	7.22		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	94638356	168870820	Rat
737821	Hcar9	Hepatocarcinoma resistance QTL 9	3.7		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	106848959	168870974	Rat
731165	Uae21	Urinary albumin excretion QTL 21	2.4	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	4	108206096	153206096	Rat
631646	Stl4	Serum triglyceride level QTL 4	6.5	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	4	74169813	134199155	Rat
634334	Xhs3	X-ray hypersensitivity QTL 3	10		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	86058928	131411333	Rat
1549839	Bw52	Body weight QTL 52		0.0001	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	71647492	116647492	Rat
61406	Scwia1	Streptococcal cell wall induced arthritis QTL 1	2.3		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	4	75939858	140508796	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	45429897	149763204	Rat
70177	Xhs1	X-ray hypersensitivity QTL 1	25.1		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	82944895	154403548	Rat
6909128	Pancm4	Pancreatic morphology QTL 4	11.35		pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	4	27862204	126119996	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	5889999	148002343	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	174095838	Rat
61476	Aia3	Adjuvant induced arthritis QTL 3	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	75939858	140508796	Rat
1576316	Ept5	Estrogen-induced pituitary tumorigenesis QTL 5	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	4	100752691	179366077	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	65060960	127749483	Rat
631662	Hcar2	Hepatocarcinoma resistance QTL 2	3.1	0.0003	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	84349032	129349032	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	45429709	157555683	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	63245026	129846354	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	184426481	Rat
1358202	Gluco11	Glucose level QTL 11	2.4	0.02	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	86709649	168870974	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	45429897	149763204	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	57664252	127749483	Rat
2306899	Bp338	Blood pressure QTL 338		0.071	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	82336765	127336765	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	51085655	113588029	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	65495851	159259805	Rat
1578670	Bss14	Bone structure and strength QTL 14	16.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	4	88883695	133883695	Rat
2317588	Eae27	Experimental allergic encephalomyelitis QTL 27			nervous system integrity trait (VT:0010566)	percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)	4	69036742	114036742	Rat
1300139	Hrtrt6	Heart rate QTL 6	2.85		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	40490442	117737312	Rat
12798523	Anxrr56	Anxiety related response QTL 56	2.83	0.05	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	86583980	131583980	Rat
70201	Gcr1	Gastric cancer resistance QTL 1	2.7		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	4	103834277	148834277	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	57613339	151163960	Rat
12798520	Anxrr55	Anxiety related response QTL 55	4.45	0.01	locomotor behavior trait (VT:0001392)	number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)	4	33538597	116185060	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	12212457	182430611	Rat
1578662	Bss15	Bone structure and strength QTL 15	19.6		femur width (VT:1000666)	femoral neck width (CMO:0001695)	4	88883695	133883695	Rat

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
14	6	42	135	51	49	20	26	20	6	160	87	3	121	34	91	29	13	13

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001395622	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NR_172650	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006236700	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017592882	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005503313	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000007993 ⟹ ENSRNOP00000007993

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	111,259,857 - 111,275,972 (+)	Ensembl
mRatBN7.2 Ensembl	4	109,701,815 - 109,717,184 (+)	Ensembl
Rnor_6.0 Ensembl	4	108,301,129 - 108,316,373 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000124442 ⟹ ENSRNOP00000107518

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	111,260,515 - 111,262,702 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000160887 ⟹ ENSRNOP00000102808

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	111,235,054 - 111,276,818 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000170942 ⟹ ENSRNOP00000105991

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	111,259,441 - 111,276,734 (+)	Ensembl

RefSeq Acc Id:

NM_001395622 ⟹ NP_001382551

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	111,259,859 - 111,262,680 (+)	NCBI
mRatBN7.2	4	109,701,815 - 109,704,636 (+)	NCBI

RefSeq Acc Id:

NR_172650

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	111,259,859 - 111,275,229 (+)	NCBI
mRatBN7.2	4	109,701,815 - 109,717,184 (+)	NCBI

RefSeq Acc Id:

XM_006236700 ⟹ XP_006236762

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	111,246,213 - 111,262,682 (+)	NCBI
mRatBN7.2	4	109,702,222 - 109,704,636 (+)	NCBI
Rnor_6.0	4	108,300,927 - 108,303,795 (+)	NCBI
Rnor_5.0	4	173,006,611 - 173,022,018 (+)	NCBI

Sequence:

show sequence

CAAATATATACAAAAAAAAAAAGAGCTGAGAGTGTTTTTCATTTCATCAAAGAACATATATTAC
TTTAGCGGCTTGGTTAAAAAAAATGTTGGTTTTCTGCCCACCCCTTTTCAATCTGCCGGTGTTG
GAGGTGCTCGGAGAAGACGCACAATCGCGAGCAGCTTACGACACTCAGTGAGCAGTCGGTGCCG
GTGCAGGCTCGCACACACTCCTCAGAGGAGGGAAGGAGCCGGGCGCTGCTCTGCGCTCCGCAAA
GCAAAGCATGAGCCGGCCAGGTTTCCGCAGCTGCCCGGGACACGAATGGCAGGCGTTTTCCAAC
TGGGACTCCAAGGTGGCTGCGATTCGCGGTGGTCATTGCCGATGACATTCTCCAGACTGTCAAA
TCCTGGGGAGTCTCGAGCCCCGAGTTTGGAGTTGATTTTTTCCCTCAACCCCCCAACCACGTCA
CAGTCTCAACTGCAGAGGAAAAAAAAAGGGGGGACCGAGGCAGGAAGGCGAGAAGCCCGGGCTC
CCGGCACGTAGTTGGGAAACTTGCGGGTCCTAGAAGTCGCCTCCTCGCCTCGCCGACCGCCCCT
GCAGCCCCGGAGCGCAGCAGCAAAGTGAGACATTGTGCGTCTGCCAGATCCTCGGGCCGCGGAG
CAGGGCTGCCTCGGGAAACACAGAGGGGTCTTCTCTCGCCCTGCATATAATTAGCCTACACACA
AAGGGAGCAGCTGAATGGAGGTTGTCACTCGCTGGAAAAGGGTGGATTTCTGACCCAGCGCTTC
CAATGGACATTCTCCAGTCTCTCTGGAAAGATTCTCGCTAATGGATTTCCTGCTACTCGGCCTC
TGTCTACACTGGCTGCTGAGGAGGCCCTCGGGGGTGGTCTTGTGTCTGCTGGGGGCCTGCTTTC
AGATGCTGCCCGCCGCCCCCAGCGGATGCCCGGGGCAGTGTCGGTGCGAGGGGCGGCTGCTGTA
CTGCGAGGCGCTCAACCTGACCGAGGCGCCCCACAACCTGTCCGGCCTGCTGGGCTTGTCTTTG
CGCTACAACAGCCTCTCGGAGCTGCGCGCTGGCCAGTTCACAGGGTTAATGCAGCTCACGTGGC
TGTATTTGGATCACAATCACATCTGCTCGGTGCAGGGGGACGCCTTTCAGAAACTGCGCCGAGT
TAAGGAACTCACACTGAGTTCCAACCAGATCACCGAACTGGCCAACACCACCTTTCGGCCCATG
CCCAACCTGCGCAGCGTGGACCTGTCCTACAACAAGCTGCAGGCGCTAGCTCCGGATCTCTTCC
ACGGGCTGCGGAAGCTCACCACCCTGCACATGCGGGCCAATGCCATTCAATTCGTGCCGGTGCG
CATCTTTCAGGACTGCCGCAGCCTCAAGTTTCTCGACATTGGATACAATCAGCTCAAGAGTCTG
GCGCGCAACTCTTTCGCCGGCTTGTTCAAGCTCACAGAGCTACACCTGGAGCATAACGACTTGA
TCAAGGTGAACTTCGCCCATTTCCCGCGCCTCATCTCCCTGAACTCGCTCTGCCTGAGGCGGAA
TAAGGTTGCCATTGTGGTCAGCTCTCTTGACTGGGTTTGGAATTTGGAGAAAATGGACTTGTCT
GGGAACGAGATCGAATACATGGAGCCCCATGTGTTCGAGACCGTGCCGTACCTGCAGTCCCTAC
AGCTGGACTCCAACCGCCTCACCTACATTGAGCCCCGTATCCTCAACTCCTGGAAGTCCCTTAC
GAGCATCACTCTAGCCGGGAACCTGTGGGACTGCGGGCGCAACGTGTGTGCCCTGGCTTCCTGG
CTCAGCAACTTCCAGGGACGTTACGATGCTAACTTGCAGTGCGCCAGCCCGGAGTACGCACAGG
GCGAGGACGTCTTGGATGCAGTTTATGCTTTCCACTTGTGTGAGGATGGGGCCGAGCCCACCAG
CGGCCACCTCCTGTCGGCGGCCGTCACTAACCGCAGTGACCTAGCGCCCCCTGAGAGCTCAGCC
ACGACTCTGGTGGACGGTGGGGAGGGGCTGCACGATAGCACGCTTGAACCCATCACCGTGGCTA
TCCCCGGCGGTGAGCACGCAGAGAACGCAGTGCAAATCCACAAGGTGGTCACGGGCACGATGGC
CCTCATCTTCTCCTTCCTCATCGTGGTCCTCGTACTTTATGTATCCTGGAAGTGTTTCCCAGCC
AGCCTCAGGCAGCTCAGACAGTGCTTTGTCACGCAGCGCAGGAAGCAGAAGCAGAAACAGACCA
TGCATCAGATGGCTGCTATGTCTGCCCAGGAATATTATGTTGATTACAAACCCAACCACATCGA
GGGGGCCCTGGTTATCATCAACGAGTACGGCTCGTGTACCTGTCACCAGCAGCCTGCGAGGGAA
TGTGAGGTGTGATTGTCCAAGAGGCTCCCTACCCATGCACTACCAAATACGCCTGGGCAGCCAG
GCGGGCCAGCGGGCACCAGGACTGGTTTCCTCTGCGCTCTGATTTGTTGACTGAAACTGTAAGG
GGATCTCTCCCAGAGACTTGACATTTTAGCTTTATGTGTCTTAAAAACAAACAAACAAACAAAA
TCCCGAAATAAAACACAACAAAAAACCCCACCCCATAA

hide sequence

RefSeq Acc Id:

XR_005503313

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	111,246,213 - 111,295,638 (+)	NCBI
mRatBN7.2	4	109,701,815 - 109,718,924 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001382551	(Get FASTA)	NCBI Sequence Viewer
	XP_006236762	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	D4A6D8	(Get FASTA)	NCBI Sequence Viewer
	EDL91071	(Get FASTA)	NCBI Sequence Viewer
	EDL91072	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000007993.5
	ENSRNOP00000107518

RefSeq Acc Id:	XP_006236762 ⟸ XM_006236700
- Peptide Label:	isoform X1
- UniProtKB:	D4A6D8 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MDFLLLGLCLHWLLRRPSGVVLCLLGACFQMLPAAPSGCPGQCRCEGRLLYCEALNLTEAPHNL SGLLGLSLRYNSLSELRAGQFTGLMQLTWLYLDHNHICSVQGDAFQKLRRVKELTLSSNQITEL ANTTFRPMPNLRSVDLSYNKLQALAPDLFHGLRKLTTLHMRANAIQFVPVRIFQDCRSLKFLDI GYNQLKSLARNSFAGLFKLTELHLEHNDLIKVNFAHFPRLISLNSLCLRRNKVAIVVSSLDWVW NLEKMDLSGNEIEYMEPHVFETVPYLQSLQLDSNRLTYIEPRILNSWKSLTSITLAGNLWDCGR NVCALASWLSNFQGRYDANLQCASPEYAQGEDVLDAVYAFHLCEDGAEPTSGHLLSAAVTNRSD LAPPESSATTLVDGGEGLHDSTLEPITVAIPGGEHAENAVQIHKVVTGTMALIFSFLIVVLVLY VSWKCFPASLRQLRQCFVTQRRKQKQKQTMHQMAAMSAQEYYVDYKPNHIEGALVIINEYGSCT CHQQPARECEV hide sequence

Ensembl Acc Id:

ENSRNOP00000007993 ⟸ ENSRNOT00000007993

RefSeq Acc Id:	NP_001382551 ⟸ NM_001395622
- Peptide Label:	precursor
- UniProtKB:	D4A6D8 (UniProtKB/Swiss-Prot)

Ensembl Acc Id:

ENSRNOP00000107518 ⟸ ENSRNOT00000124442

Ensembl Acc Id:

ENSRNOP00000105991 ⟸ ENSRNOT00000170942

Ensembl Acc Id:

ENSRNOP00000102808 ⟸ ENSRNOT00000160887

Protein Domains

LRRCT LRRNT

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A6D8-F1-model_v2	AlphaFold	D4A6D8	1-523	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1585921	AgrOrtholog
BioCyc Gene	G2FUF-44091	BioCyc
Ensembl Genes	ENSRNOG00000006093	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000007993.6	UniProtKB/Swiss-Prot
	ENSRNOT00000124442	ENTREZGENE
Gene3D-CATH	3.80.10.10	UniProtKB/Swiss-Prot
InterPro	Leu-rich_rpt	UniProtKB/Swiss-Prot
	Leu-rich_rpt_typical-subtyp	UniProtKB/Swiss-Prot
	LRFN	UniProtKB/Swiss-Prot
	LRR_dom_sf	UniProtKB/Swiss-Prot
NCBI Gene	679668	ENTREZGENE
PANTHER	KEKKON 5, ISOFORM A	UniProtKB/Swiss-Prot
	SYNAPTIC ADHESION-LIKE MOLECULE SALM	UniProtKB/Swiss-Prot
Pfam	LRR_8	UniProtKB/Swiss-Prot
PhenoGen	Lrrtm1	PhenoGen
PROSITE	LRR	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000006093	RatGTEx
SMART	LRR_TYP	UniProtKB/Swiss-Prot
Superfamily-SCOP	L domain-like	UniProtKB/Swiss-Prot
UniProt	D4A6D8	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2025-02-03	Lrrtm1	leucine rich repeat transmembrane neuronal 1	LRRTM1	leucine rich repeat transmembrane neuronal 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-12-02	LRRTM1	leucine rich repeat transmembrane neuronal 1	LOC679668	similar to leucine-rich repeat transmembrane neuronal 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-01-09	LOC679668	similar to leucine-rich repeat transmembrane neuronal 1	LOC684054	similar to leucine-rich repeat transmembrane neuronal 1	Data merged from RGD:1595192	1643240	APPROVED
2006-11-20	LOC684054	similar to leucine-rich repeat transmembrane neuronal 1			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC679668	similar to leucine-rich repeat transmembrane neuronal 1			Symbol and Name status set to provisional	70820	PROVISIONAL

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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Imported Disease Annotations - MGI