Advanced Search (OLGA)

Gene: Lrfn3 (leucine rich repeat and fibronectin type III domain containing 3) Rattus norvegicus

Analyze

Symbol:

Lrfn3

Name:

leucine rich repeat and fibronectin type III domain containing 3

RGD ID:

1305567

Description:

Involved in regulation of presynapse assembly; regulation of synaptic membrane adhesion; and synaptic membrane adhesion. Is active in glutamatergic synapse; postsynaptic density membrane; and presynaptic active zone membrane. Orthologous to human LRFN3 (leucine rich repeat and fibronectin type III domain containing 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 3,3',4,4',5-pentachlorobiphenyl.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

leucine-rich repeat and fibronectin type-III domain-containing protein 3; LOC308495; Salm4; synaptic adhesion-like molecule 4

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	1	94,744,315 - 94,751,001 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	94,744,321 - 94,751,178 (-)	Ensembl				GRCr8
mRatBN7.2	1	85,616,862 - 85,623,725 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	85,616,868 - 85,623,725 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	91,032,611 - 91,038,088 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	99,500,020 - 99,505,498 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	92,790,874 - 92,796,351 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	88,819,439 - 88,827,002 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	88,819,445 - 88,826,302 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	89,975,457 - 89,983,028 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	1	85,308,917 - 85,314,395 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	79,989,362 - 79,994,840 (-)	NCBI		Celera
RGSC_v3.1	1	85,387,026 - 85,394,405 (-)	NCBI
Cytogenetic Map	1	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

COVID-19 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

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

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

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

2,4-dinitrotoluene (EXP)

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

4-amino-2,6-dinitrotoluene (EXP)

acrylamide (ISO)

aflatoxin B1 (ISO)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

clofibrate (ISO)

cobalt dichloride (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

DDE (ISO)

dibenz[a,h]anthracene (ISO)

Dibutyl phosphate (ISO)

dichloroacetic acid (ISO)

dicrotophos (ISO)

dioxygen (ISO)

disodium selenite (ISO)

endosulfan (EXP)

ethanol (ISO)

fenthion (ISO)

folic acid (ISO)

furan (EXP)

gentamycin (EXP)

glyphosate (EXP)

graphene oxide (ISO)

GSK-J4 (ISO)

hexane (EXP)

inulin (ISO)

menadione (ISO)

methotrexate (ISO)

methylmercury chloride (ISO)

paracetamol (EXP)

perfluorooctane-1-sulfonic acid (ISO)

pirinixic acid (ISO)

resveratrol (ISO)

silicon dioxide (ISO)

sunitinib (ISO)

temozolomide (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

tributylstannane (ISO)

trichloroethene (EXP,ISO)

trimellitic anhydride (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell adhesion (IEA)

regulation of presynapse assembly (IDA,IMP)

regulation of synaptic membrane adhesion (IDA,IMP)

synaptic membrane adhesion (IDA,IMP)

Cellular Component

axon (IEA)

cell surface (IBA,IEA,ISO)

dendrite (IEA)

glutamatergic synapse (IDA,IMP)

plasma membrane (IEA)

postsynaptic density membrane (IDA,IEA,IEP)

postsynaptic membrane (IEA)

postsynaptic specialization membrane (IDA)

presynaptic active zone membrane (IBA,IDA)

presynaptic membrane (IEA)

synapse (IEA)

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.	SALM4 suppresses excitatory synapse development by cis-inhibiting trans-synaptic SALM3-LAR adhesion.	Lie E, etal., Nat Commun. 2016 Aug 2;7:12328. doi: 10.1038/ncomms12328.
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	The SALM family of adhesion-like molecules forms heteromeric and homomeric complexes.	Seabold GK, etal., J Biol Chem. 2008 Mar 28;283(13):8395-405. doi: 10.1074/jbc.M709456200. Epub 2008 Jan 28.

Additional References at PubMed

PMID:12477932	PMID:16828986	PMID:20600927

Genomics

Comparative Map Data

Lrfn3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	94,744,315 - 94,751,001 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	94,744,321 - 94,751,178 (-)	Ensembl				GRCr8
mRatBN7.2	1	85,616,862 - 85,623,725 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	85,616,868 - 85,623,725 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	91,032,611 - 91,038,088 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	99,500,020 - 99,505,498 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	92,790,874 - 92,796,351 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	88,819,439 - 88,827,002 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	88,819,445 - 88,826,302 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	89,975,457 - 89,983,028 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	1	85,308,917 - 85,314,395 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	79,989,362 - 79,994,840 (-)	NCBI		Celera
RGSC_v3.1	1	85,387,026 - 85,394,405 (-)	NCBI
Cytogenetic Map	1	q21	NCBI

LRFN3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	19	35,936,374 - 35,946,624 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	19	35,935,358 - 35,946,624 (+)	Ensembl			hg38	GRCh38
GRCh37	19	36,427,276 - 36,437,526 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	41,119,862 - 41,127,937 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	19	41,119,861 - 41,127,935	NCBI
Celera	19	33,142,210 - 33,150,285 (+)	NCBI		Celera
Cytogenetic Map	19	q13.12	NCBI
HuRef	19	32,933,242 - 32,941,317 (+)	NCBI		HuRef
CHM1_1	19	36,429,353 - 36,437,428 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	19	38,482,159 - 38,492,409 (+)	NCBI		T2T-CHM13v2.0

Lrfn3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	30,054,939 - 30,062,197 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	30,054,914 - 30,062,197 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	7	30,355,514 - 30,362,772 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	30,355,489 - 30,362,772 (-)	Ensembl			mm10	GRCm38
MGSCv37	7	31,140,533 - 31,147,791 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	7	30,064,274 - 30,071,532 (-)	NCBI		MGSCv36	mm8
Celera	7	24,953,613 - 24,960,867 (-)	NCBI		Celera
Cytogenetic Map	7	B1	NCBI
cM Map	7	17.41	NCBI

Lrfn3
(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_004955468	2,626,594 - 2,637,497 (-)	Ensembl
ChiLan1.0	NW_004955468	2,629,781 - 2,637,497 (-)	NCBI	ChiLan1.0	ChiLan1.0

LRFN3
(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	20	41,935,116 - 41,943,927 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	19	43,919,277 - 43,928,088 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	19	32,852,993 - 32,863,240 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	19	41,601,372 - 41,613,178 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	41,601,372 - 41,615,210 (+)	Ensembl			panPan2	panpan1.1

LRFN3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	116,727,092 - 116,734,844 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	116,128,797 - 116,140,146 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	117,326,644 - 117,337,993 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	117,331,617 - 117,337,645 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	116,890,215 - 116,901,547 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	116,513,780 - 116,525,120 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	117,569,445 - 117,580,786 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Lrfn3
(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_024409349	11,219,543 - 11,226,213 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936570	419,541 - 426,345 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936570	419,664 - 426,339 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LRFN3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	45,346,637 - 45,351,990 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	6	45,343,846 - 45,352,779 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	40,746,518 - 40,754,667 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LRFN3
(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	6	30,850,915 - 30,860,452 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	6	30,854,451 - 30,862,658 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666073	8,643,698 - 8,653,065 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lrfn3
(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_004624794	10,221,736 - 10,229,232 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624794	10,221,669 - 10,234,029 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Lrfn3
(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	2	165,638,572 - 165,645,837 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Lrfn3
37 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	53
Count of miRNA genes:	51
Interacting mature miRNAs:	53
Transcripts:	ENSRNOT00000028275
Prediction methods:	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
1578649	Bmd8	Bone mineral density QTL 8	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	1	51940904	101229020	Rat
1582234	Gluco18	Glucose level QTL 18	3.4	0.0003	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	87889942	132889942	Rat
1358359	Sradr1	Stress Responsive Adrenal Weight QTL 1	4.74		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	1	39728272	132889942	Rat
634314	Niddm44	Non-insulin dependent diabetes mellitus QTL 44			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	51941022	208479811	Rat
1578654	Bss10	Bone structure and strength QTL 10	4		femur morphology trait (VT:0000559)	femoral neck cortical cross-sectional area (CMO:0001702)	1	51940904	168768703	Rat
2300324	Fetw1	Fetal weight QTL 1	12.1	0.005	fetal growth trait (VT:0004201)	fetal body weight (CMO:0002080)	1	92963855	109494029	Rat
1331800	Scl25	Serum cholesterol level QTL 25	3.013		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	1	87785026	142582336	Rat
7421628	Bp361	Blood pressure QTL 361		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	83019780	128019780	Rat
631495	Bp96	Blood pressure QTL 96	4.52		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	66404680	111404680	Rat
70225	Bp58	Blood pressure QTL 58	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	34184556	172281316	Rat
631512	Scl6	Serum cholesterol level QTL 6	9.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	1	81269860	99645535	Rat
2298545	Neuinf8	Neuroinflammation QTL 8	4.6		nervous system integrity trait (VT:0010566)	spinal cord beta-2 microglobulin mRNA level (CMO:0002125)	1	66009857	160501508	Rat
10059597	Bp377	Blood pressure QTL 377	3.42	0.025	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	34565911	208798288	Rat
631519	Pia11	Pristane induced arthritis QTL 11	5.3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	1	93903998	191260518	Rat
1302788	Scl19	Serum cholesterol QTL 19	4.6	0.001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	1	66400974	132889942	Rat
1549903	Bp267	Blood pressure QTL 267			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	84107164	115183752	Rat
2313083	Bmd74	Bone mineral density QTL 74	4	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	1	91302413	136302413	Rat
2313402	Anxrr24	Anxiety related response QTL 24			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	1	51511344	153680016	Rat
61342	Bp27	Blood pressure QTL 27	3.4	0.0006	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	65405637	96805205	Rat
1358192	Ept13	Estrogen-induced pituitary tumorigenesis QTL 13	3.4		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	1	86622262	131622262	Rat
6903308	Scl36	Serum cholesterol QTL 36	2	0.0125	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	1	58769992	103769992	Rat
2300164	Bmd44	Bone mineral density QTL 44	5.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	1	66077886	111077886	Rat
738022	Anxrr13	Anxiety related response QTL 13	4.6	0.00039	locomotor behavior trait (VT:0001392)	measurement of voluntary locomotion into, out of, or within a discrete space in an open field apparatus (CMO:0001514)	1	92683681	137683681	Rat
152025249	Scl82	Serum cholesterol level QTL 82	4.77		blood cholesterol amount (VT:0000180)		1	52891222	109116986	Rat
10054135	Gmadr2	Adrenal mass QTL 2	1.97	0.0129	adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	1	86993904	131993904	Rat
7411712	Strs4	Sensitivity to stroke QTL 4	8.7		cerebrum integrity trait (VT:0010549)	percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)	1	87558587	132558587	Rat
1331749	Hrtrt11	Heart rate QTL 11	2.973		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	92683681	137683681	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
15	12	67	160	85	84	57	60	57	6	320	160	10	139	80	92	27	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001107502	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006228771	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC158862	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473979	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000028275 ⟹ ENSRNOP00000028275

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	94,744,321 - 94,751,178 (-)	Ensembl
mRatBN7.2 Ensembl	1	85,616,868 - 85,623,725 (-)	Ensembl
Rnor_6.0 Ensembl	1	88,819,445 - 88,826,302 (-)	Ensembl

RefSeq Acc Id:

NM_001107502 ⟹ NP_001100972

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	94,744,315 - 94,749,793 (-)	NCBI
mRatBN7.2	1	85,616,862 - 85,622,340 (-)	NCBI
Rnor_6.0	1	88,819,439 - 88,824,917 (-)	NCBI
Rnor_5.0	1	89,975,457 - 89,983,028 (-)	NCBI
RGSC_v3.4	1	85,308,917 - 85,314,395 (-)	RGD
Celera	1	79,989,362 - 79,994,840 (-)	RGD

Sequence:

show sequence

GCCACCCCTGCCCGCGATGGCCGTCCTTCCACTACTCCTTTGCCTGCTACCGCTGGCCCCCGCC
TCATCTCCACCCCAGCCGGCCACATCCAGCCCCTGCCCCCGCCGTTGCCGCTGCCAGACCCAGT
CGCTGCCCCTAAGCGTGTTGTGCCCAGGGGCGGGCCTTCTGTTCGTGCCGCCATCACTGGATCG
CCGCGCAGCGGAGTTGCGCCTGGCAGACAACTTCATCGCGGCAGTGCGTCGTCGAGACCTGGCC
AACATGACAGGCCTGCTGCATTTGAGCTTATCTAGAAACACCATCCGCCATGTGGCAGCTGGCG
CCTTCGCCGACCTACGTGCCCTGCGTGCCCTGCACCTAGATGGCAATAGACTGACCTCGCTGGG
CGAGGGTCAGCTGCGCGGCTTAGTCAACTTGCGCCACCTCATCTTGAGCAACAACCAGCTAGCA
GCCCTGGCAGCTGGTGCACTAGACGACTGTGCCGAGACCCTGGAGGACCTCGATCTCTCTTATA
ATAACCTTGAGCAGCTGCCCTGGGAGGCTTTGGGTCGCCTGGGCAATGTCAACACGTTGGGCCT
TGACCACAATTTGTTGGCTTCGGTGCCTGCTGGAGCCTTTTCCCGCCTGCACAAGTTGGCGCGA
CTGGACATGACCTCCAACCGCCTGACCACCATTCCTCCTGACCCACTCTTTTCCCGCCTGCCAC
TGCTTGCCCGGCCTAGAGGCTCACCAGCCTCTGCTCTGGTGCTGGCCTTCGGGGGAAACCCCCT
GCATTGCAACTGTGAACTGGTGTGGCTGCGGCGCCTGGCTCGGGAAGACGACCTCGAGGCCTGT
GCCTCACCACCCGCTCTGGGGGGCCGCTACTTCTGGGCCGTGGGTGAGGAGGAGTTTGTGTGTG
AGCCACCCGTGGTGACCCACCGCTCACCTCCCCTGGCAGTGCCCGCAGGTCGGCCAGCTGCCCT
GCGATGCCGGGCAGTAGGGGACCCAGAGCCACGAGTGCGTTGGGTATCACCCCAGGGTCGGCTG
CTGGGCAACTCCAGCCGTGCCCGTGCCTTCCCTAATGGGACCCTGGAGCTACTGGTCACTGAGC
CAGAAGATGGTGGTACATTCACTTGCATTGCAGCCAATGCTGCTGGCGAGGCCACTGCTGCTGT
TGAGCTGACCGTGGGTCCCCCTCCACCTCCCCAGCTAGCCAATAGCACCAGCTGTGACCCCCCG
CGGGACGGGGAACCCGACGCCCTCACCCCGCCCTCTGCGGCTTCGGCCTCCGCCAAAGTGGCCG
ACACCGTGGCCCCTACCGACCGTGGTGTCCAAGTGACTGAGCATGGGGCCACAGCAGCTCTTGT
CCAGTGGCCAGATCAACGGCCCGTCCCAGGCATCCGCATGTACCAGATCCAGTACAACAGCTCT
GCCGACGACATCCTCGTTTACAGGATGATCCCAGCGGACAGTCGCTCCTTCCTGCTGACTGACC
TGGCGTCAGGCCGTACCTATGATCTGTGTGTGCTCGCAGTTTATGAGGACAGTGCCACCGGGCT
AACAGCCACACGGCCCGTGGGCTGCGCTCGGTTCTCCACGGAGCCTGCACTTCGGCCTTGTGCT
GCACCACACGCACCGTTCCTGGGCGGCACCATGATTATTGCGCTGGGAGGTGTCATCGTCGCTT
CTGTTCTGGTCTTCATTTTCGTGCTACTTCTACGCTACAAGGTGCACGGAGTCCAACCGCCGGG
CAAGGCCAAGGCCACAGCACCTGTCAGCAGCGTTTGCTCCCAGACCAACGGAGCCCTCGGCCCC
GTGCCCAGTGCGCCTGCCCCTGAGCCTGCTGCACCAAGGGCCCATACTGTGGTCCAATTGGACT
GTGAGCCCTGGGGGCCCAGTCACGAACCTGCAGGACCCTAGCCGAGGGCCCACCTCTATGGTTC
CTCTGGATCCAGACATCCCTCGGGACCTGGCCTCAGACTCACCAAATTGCTCACGGTTTTTAAA
ACTCTGATGGGGAGGGTGTCGGGGTCACCGGGGCACAACAAGAAAGTCCTATTTTTCTAAGTTT

hide sequence

RefSeq Acc Id:

XM_006228771 ⟹ XP_006228833

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	94,744,319 - 94,751,001 (-)	NCBI
mRatBN7.2	1	85,616,866 - 85,623,725 (-)	NCBI
Rnor_6.0	1	88,819,443 - 88,827,002 (-)	NCBI
Rnor_5.0	1	89,975,457 - 89,983,028 (-)	NCBI

Sequence:

show sequence

GGGTTCCCGCGTGGCCCTGTCTGTCTGTCCGTCTGTCCGCGCCCAGGCCTCGCCCCACCCTGGC
CCTAGAGCTGCCCCGCTGCCCCCCTACCCGCCACAGCAGACCCCCTCTTTCTGGGCCAGTCTCC
TCTACAGGCCACGAACCCAATCGCGCCATTGCTGCCCCAGACCGTCGGCCGGCACCCCGACATC
GGGGGCGCTTGCAGCCGGCGATCAGATCCAGATATTCTGAAACCCCCGAGCGTGGGACCCTGAT
TTGGGATCAGCACCCTGAGCTCCTGCCATGGAACCCTAAGACCCGGACCTTGAACCTCAATATC
TGGGGCTGGAATCCCGACATCCGTCTCTGGGACCCCAAGATTTGGAAACTGAACCCCACGATTT
TGAAGCATGGACCCCAATATTTGGACCGGGGACCCCAAGATTTGGCATCTAAGGCCCCAAATTT
GGAGCTGAACTCTGAATTGTCTGGCTGATACGTTGACATCTGGGAGCGAATTCCCAAATCTATA
CCTGGGACCCCACTATTTGGGGAGAGAAACCCTGGGATTTAGGCCTTCAATTCCAAGGTTTGAA
CTGTGGGATTCCGAGGGGCCTGAAGTACTTGCTGCAGACCTGAGTGTTGAAATCTGGGGCTAGA
GACCTCCAAGTCTTGACTCAGCACCTACTATCTGAACAGGATCCCAATTTCGATGCCAGGACTG
GACGTGGGCTTCAGACCCTAAACTTCCCCATCTGGCTGTTTGTTATCTCAAGTCTGGCACTGAG
AGAGATCTTAAAGAGCCACTGGGGTCTTGATTTCTAAAGCTGGACTCTAGAGGCCCAGTTTTTA
TGTTCTGGGACCCCAAGAATCAAGTTTGGAGACGCTGTAACCACAGACTGGATCTGGGACATGA
CAGTTCCTTCCCCAAGGCCCTGGGGACAGGGAAGGCTTGACCAGATGCCCCCTCCAGAGTTCTG
ACCTCACCCCCTTGGAGCCTGAGGACTCTGCTCCCTGGGGTAGCTTCCAGTTCAGGCCACCCCT
GCCCGCGATGGCCGTCCTTCCACTACTCCTTTGCCTGCTACCGCTGGCCCCCGCCTCATCTCCA
CCCCAGCCGGCCACATCCAGCCCCTGCCCCCGCCGTTGCCGCTGCCAGACCCAGTCGCTGCCCC
TAAGCGTGTTGTGCCCAGGGGCGGGCCTTCTGTTCGTGCCGCCATCACTGGATCGCCGCGCAGC
GGAGTTGCGCCTGGCAGACAACTTCATCGCGGCAGTGCGTCGTCGAGACCTGGCCAACATGACA
GGCCTGCTGCATTTGAGCTTATCTAGAAACACCATCCGCCATGTGGCAGCTGGCGCCTTCGCCG
ACCTACGTGCCCTGCGTGCCCTGCACCTAGATGGCAATAGACTGACCTCGCTGGGCGAGGGTCA
GCTGCGCGGCTTAGTCAACTTGCGCCACCTCATCTTGAGCAACAACCAGCTAGCAGCCCTGGCA
GCTGGTGCACTAGACGACTGTGCCGAGACCCTGGAGGACCTCGATCTCTCTTATAATAACCTTG
AGCAGCTGCCCTGGGAGGCTTTGGGTCGCCTGGGCAATGTCAACACGTTGGGCCTTGACCACAA
TTTGTTGGCTTCGGTGCCTGCTGGAGCCTTTTCCCGCCTGCACAAGTTGGCGCGACTGGACATG
ACCTCCAACCGCCTGACCACCATTCCTCCTGACCCACTCTTTTCCCGCCTGCCACTGCTTGCCC
GGCCTAGAGGCTCACCAGCCTCTGCTCTGGTGCTGGCCTTCGGGGGAAACCCCCTGCATTGCAA
CTGTGAACTGGTGTGGCTGCGGCGCCTGGCTCGGGAAGACGACCTCGAGGCCTGTGCCTCACCA
CCCGCTCTGGGGGGCCGCTACTTCTGGGCCGTGGGTGAGGAGGAGTTTGTGTGTGAGCCACCCG
TGGTGACCCACCGCTCACCTCCCCTGGCAGTGCCCGCAGGTCGGCCAGCTGCCCTGCGATGCCG
GGCAGTAGGGGACCCAGAGCCACGAGTGCGTTGGGTATCACCCCAGGGTCGGCTGCTGGGCAAC
TCCAGCCGTGCCCGTGCCTTCCCTAATGGGACCCTGGAGCTACTGGTCACTGAGCCAGAAGATG
GTGGTACATTCACTTGCATTGCAGCCAATGCTGCTGGCGAGGCCACTGCTGCTGTTGAGCTGAC
CGTGGGTCCCCCTCCACCTCCCCAGCTAGCCAATAGCACCAGCTGTGACCCCCCGCGGGACGGG
GAACCCGACGCCCTCACCCCGCCCTCTGCGGCTTCGGCCTCCGCCAAAGTGGCCGACACCGTGG
CCCCTACCGACCGTGGTGTCCAAGTGACTGAGCATGGGGCCACAGCAGCTCTTGTCCAGTGGCC
AGATCAACGGCCCGTCCCAGGCATCCGCATGTACCAGATCCAGTACAACAGCTCTGCCGACGAC
ATCCTCGTTTACAGGATGATCCCAGCGGACAGTCGCTCCTTCCTGCTGACTGACCTGGCGTCAG
GCCGTACCTATGATCTGTGTGTGCTCGCAGTTTATGAGGACAGTGCCACCGGGCTAACAGCCAC
ACGGCCCGTGGGCTGCGCTCGGTTCTCCACGGAGCCTGCACTTCGGCCTTGTGCTGCACCACAC
GCACCGTTCCTGGGCGGCACCATGATTATTGCGCTGGGAGGTGTCATCGTCGCTTCTGTTCTGG
TCTTCATTTTCGTGCTACTTCTACGCTACAAGGTGCACGGAGTCCAACCGCCGGGCAAGGCCAA
GGCCACAGCACCTGTCAGCAGCGTTTGCTCCCAGACCAACGGAGCCCTCGGCCCCGTGCCCAGT
GCGCCTGCCCCTGAGCCTGCTGCACCAAGGGCCCATACTGTGGTCCAATTGGACTGTGAGCCCT
GGGGGCCCAGTCACGAACCTGCAGGACCCTAGCCGAGGGCCCACCTCTATGGTTCCTCTGGATC
CAGACATCCCTCGGGACCTGGCCTCAGACTCACCAAATTGCTCACGGTTTTTAAAACTCTGATG
GGGAGGGTGTCGGGGTCACCGGGGCACAACAAGAAAGTCCTATTTTTCTAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001100972	(Get FASTA)	NCBI Sequence Viewer
	XP_006228833	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI58863	(Get FASTA)	NCBI Sequence Viewer
	B0BNK7	(Get FASTA)	NCBI Sequence Viewer
	EDM07768	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000028275
	ENSRNOP00000028275.4

RefSeq Acc Id:	NP_001100972 ⟸ NM_001107502
- Peptide Label:	precursor
- UniProtKB:	B0BNK7 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MAVLPLLLCLLPLAPASSPPQPATSSPCPRRCRCQTQSLPLSVLCPGAGLLFVPPSLDRRAAEL RLADNFIAAVRRRDLANMTGLLHLSLSRNTIRHVAAGAFADLRALRALHLDGNRLTSLGEGQLR GLVNLRHLILSNNQLAALAAGALDDCAETLEDLDLSYNNLEQLPWEALGRLGNVNTLGLDHNLL ASVPAGAFSRLHKLARLDMTSNRLTTIPPDPLFSRLPLLARPRGSPASALVLAFGGNPLHCNCE LVWLRRLAREDDLEACASPPALGGRYFWAVGEEEFVCEPPVVTHRSPPLAVPAGRPAALRCRAV GDPEPRVRWVSPQGRLLGNSSRARAFPNGTLELLVTEPEDGGTFTCIAANAAGEATAAVELTVG PPPPPQLANSTSCDPPRDGEPDALTPPSAASASAKVADTVAPTDRGVQVTEHGATAALVQWPDQ RPVPGIRMYQIQYNSSADDILVYRMIPADSRSFLLTDLASGRTYDLCVLAVYEDSATGLTATRP VGCARFSTEPALRPCAAPHAPFLGGTMIIALGGVIVASVLVFIFVLLLRYKVHGVQPPGKAKAT APVSSVCSQTNGALGPVPSAPAPEPAAPRAHTVVQLDCEPWGPSHEPAGP hide sequence

RefSeq Acc Id:

XP_006228833 ⟸ XM_006228771

- Peptide Label:

isoform X1

- Sequence:

show sequence

MAVLPLLLCLLPLAPASSPPQPATSSPCPRRCRCQTQSLPLSVLCPGAGLLFVPPSLDRRAAEL
RLADNFIAAVRRRDLANMTGLLHLSLSRNTIRHVAAGAFADLRALRALHLDGNRLTSLGEGQLR
GLVNLRHLILSNNQLAALAAGALDDCAETLEDLDLSYNNLEQLPWEALGRLGNVNTLGLDHNLL
ASVPAGAFSRLHKLARLDMTSNRLTTIPPDPLFSRLPLLARPRGSPASALVLAFGGNPLHCNCE
LVWLRRLAREDDLEACASPPALGGRYFWAVGEEEFVCEPPVVTHRSPPLAVPAGRPAALRCRAV
GDPEPRVRWVSPQGRLLGNSSRARAFPNGTLELLVTEPEDGGTFTCIAANAAGEATAAVELTVG
PPPPPQLANSTSCDPPRDGEPDALTPPSAASASAKVADTVAPTDRGVQVTEHGATAALVQWPDQ
RPVPGIRMYQIQYNSSADDILVYRMIPADSRSFLLTDLASGRTYDLCVLAVYEDSATGLTATRP
VGCARFSTEPALRPCAAPHAPFLGGTMIIALGGVIVASVLVFIFVLLLRYKVHGVQPPGKAKAT
APVSSVCSQTNGALGPVPSAPAPEPAAPRAHTVVQLDCEPWGPSHEPAGP

hide sequence

Ensembl Acc Id:

ENSRNOP00000028275 ⟸ ENSRNOT00000028275

Protein Domains

Fibronectin type-III Ig-like LRRCT LRRNT

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B0BNK7-F1-model_v2	AlphaFold	B0BNK7	1-626	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:1305567	AgrOrtholog
BioCyc Gene	G2FUF-60122	BioCyc
Ensembl Genes	ENSRNOG00000020839	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000028275	ENTREZGENE
	ENSRNOT00000028275.6	UniProtKB/Swiss-Prot
Gene3D-CATH	2.60.40.10	UniProtKB/Swiss-Prot
	3.80.10.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7933283	IMAGE-MGC_LOAD
InterPro	Cys-rich_flank_reg_C	UniProtKB/Swiss-Prot
	FN3_dom	UniProtKB/Swiss-Prot
	FN3_sf	UniProtKB/Swiss-Prot
	Ig-like_dom	UniProtKB/Swiss-Prot
	Ig-like_dom_sf	UniProtKB/Swiss-Prot
	Ig-like_fold	UniProtKB/Swiss-Prot
	Ig_I-set	UniProtKB/Swiss-Prot
	Ig_sub	UniProtKB/Swiss-Prot
	Ig_sub2	UniProtKB/Swiss-Prot
	Leu-rich_rpt	UniProtKB/Swiss-Prot
	Leu-rich_rpt_typical-subtyp	UniProtKB/Swiss-Prot
	LRFN	UniProtKB/Swiss-Prot
	LRR_dom_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:308495	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:188435	IMAGE-MGC_LOAD
NCBI Gene	308495	ENTREZGENE
PANTHER	LEUCINE-RICH REPEAT AND FIBRONECTIN TYPE-III DOMAIN-CONTAINING PROTEIN 3	UniProtKB/Swiss-Prot
	SYNAPTIC ADHESION-LIKE MOLECULE SALM	UniProtKB/Swiss-Prot
Pfam	fn3	UniProtKB/Swiss-Prot
	I-set	UniProtKB/Swiss-Prot
	LRR_8	UniProtKB/Swiss-Prot
PhenoGen	Lrfn3	PhenoGen
PROSITE	FN3	UniProtKB/Swiss-Prot
	IG_LIKE	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000020839	RatGTEx
SMART	IGc2	UniProtKB/Swiss-Prot
	LRR_TYP	UniProtKB/Swiss-Prot
	LRRCT	UniProtKB/Swiss-Prot
	SM00409	UniProtKB/Swiss-Prot
Superfamily-SCOP	L domain-like	UniProtKB/Swiss-Prot
	SSF48726	UniProtKB/Swiss-Prot
	SSF49265	UniProtKB/Swiss-Prot
UniProt	B0BNK7	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Lrfn3	leucine rich repeat and fibronectin type III domain containing 3	Lrfn3_predicted	leucine rich repeat and fibronectin type III domain containing 3 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Lrfn3_predicted	leucine rich repeat and fibronectin type III domain containing 3 (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)

Send us a Message