Lat2 (linker for activation of T cells family, member 2)

Gene: Lat2 (linker for activation of T cells family, member 2) Rattus norvegicus

Analyze

Symbol:

Lat2

Name:

linker for activation of T cells family, member 2

RGD ID:

631397

Description:

Predicted to enable SH2 domain binding activity. Predicted to be involved in B cell activation; B cell receptor signaling pathway; and calcium-mediated signaling. Predicted to be located in membrane raft. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in Williams-Beuren syndrome. Orthologous to human LAT2 (linker for activation of T cells family member 2); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LAT-2 like; linker for activation of B-cells; linker for activation of T-cells family member 2; non-T cell activation linker; non-T-cell activation linker; Ntal; Wbscr5; Williams-Beuren syndrome chromosome region 5 homolog; Williams-Beuren syndrome chromosome region 5 homolog (human); Williams-Beuren syndrome chromosome region 5-like protein

RGD Orthologs

Alliance Genes

More Info

more info ...

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	27,740,647 - 27,754,760 (+)	NCBI		GRCr8
mRatBN7.2	12	22,104,173 - 22,118,294 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	22,104,219 - 22,118,288 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	23,252,803 - 23,259,102 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	23,863,886 - 23,870,183 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	22,930,369 - 22,936,714 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	25,114,099 - 25,128,381 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	25,119,355 - 25,125,749 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	27,114,507 - 27,128,775 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	23,174,554 - 23,180,908 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	23,035,110 - 23,041,465 (+)	NCBI
Celera	12	23,873,387 - 23,879,734 (+)	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

acute promyelocytic leukemia (ISO)

autism spectrum disorder (ISO)

autistic disorder (ISO)

Disease Progression (ISO)

Experimental Leukemia (ISO)

genetic disease (ISO)

intestinal volvulus (ISO)

Neurodevelopmental Disorders (ISO)

pleomorphic xanthoastrocytoma (ISO)

schizophrenia (ISO)

Volvulus Of Midgut (ISO)

Williams-Beuren syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP)

17beta-estradiol 3-benzoate (EXP)

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

2-bromohexadecanoic acid (ISO)

8-Br-cAMP (ISO)

acetamide (EXP)

acrolein (ISO)

acrylamide (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

antirheumatic drug (ISO)

aristolochic acid A (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

buta-1,3-diene (ISO)

butanal (ISO)

cadmium atom (ISO)

cadmium dichloride (EXP,ISO)

calcitriol (ISO)

carbon nanotube (ISO)

chloroquine (ISO)

chlorpyrifos (ISO)

choline (ISO)

copper(II) sulfate (ISO)

Cuprizon (EXP)

dextran sulfate (ISO)

diarsenic trioxide (ISO)

ethyl methanesulfonate (ISO)

folic acid (ISO)

formaldehyde (ISO)

FR900359 (ISO)

graphite (EXP)

ixazomib (ISO)

L-methionine (ISO)

lead diacetate (ISO)

lead(0) (ISO)

methyl beta-cyclodextrin (ISO)

methyl methanesulfonate (ISO)

N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal (ISO)

nickel atom (ISO)

O-methyleugenol (ISO)

ozone (ISO)

paracetamol (EXP,ISO)

paraoxon (ISO)

pentanal (ISO)

perifosine (ISO)

pirinixic acid (ISO)

propanal (ISO)

reactive oxygen species (ISO)

resveratrol (ISO)

silicon dioxide (ISO)

sirolimus (ISO)

sodium dichromate (ISO)

sotorasib (ISO)

temozolomide (ISO)

testosterone (EXP,ISO)

tetrachloromethane (EXP)

Theaflavin 3,3'-digallate (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trametinib (ISO)

valproic acid (ISO)

wortmannin (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

adaptive immune response (IEA)

B cell activation (IBA,IEA,ISO)

B cell receptor signaling pathway (IBA,IEA,ISO)

calcium-mediated signaling (IBA,IEA,ISO)

immune response-regulating signaling pathway (IEA)

intracellular signal transduction (ISO)

mast cell degranulation (IEA)

Cellular Component

membrane raft (ISO)

plasma membrane (IBA,IEA,ISO)

Molecular Function

protein binding (ISO)

SH2 domain binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Non-T cell activation linker (NTAL): a transmembrane adaptor protein involved in immunoreceptor signaling.	Brdicka T, etal., J Exp Med 2002 Dec 16;196(12):1617-26.
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.	Comparative genomic sequence analysis of the Williams syndrome region (LIMK1-RFC2) of human chromosome 7q11.23.	Martindale DW, etal., Mamm Genome 2000 Oct;11(10):890-8.
4.	GOA pipeline	RGD automated data pipeline
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12514734	PMID:14722116	PMID:15477348	PMID:17013982	PMID:17911602	PMID:20442417	PMID:20458337	PMID:21403644	PMID:23443658	PMID:26448619	PMID:29099056

Genomics

Comparative Map Data

Lat2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	27,740,647 - 27,754,760 (+)	NCBI		GRCr8
mRatBN7.2	12	22,104,173 - 22,118,294 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	22,104,219 - 22,118,288 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	23,252,803 - 23,259,102 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	23,863,886 - 23,870,183 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	22,930,369 - 22,936,714 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	25,114,099 - 25,128,381 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	25,119,355 - 25,125,749 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	27,114,507 - 27,128,775 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	23,174,554 - 23,180,908 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	23,035,110 - 23,041,465 (+)	NCBI
Celera	12	23,873,387 - 23,879,734 (+)	NCBI		Celera
Cytogenetic Map	12	q12	NCBI

LAT2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	74,210,006 - 74,229,834 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	74,199,652 - 74,229,834 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	73,624,336 - 73,644,164 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	73,262,023 - 73,282,100 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	73,068,925 - 73,088,808	NCBI
Celera	7	69,103,651 - 69,123,730 (+)	NCBI		Celera
Cytogenetic Map	7	q11.23	NCBI
HuRef	7	69,505,694 - 69,525,599 (+)	NCBI		HuRef
CHM1_1	7	73,769,175 - 73,789,226 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	75,412,292 - 75,432,128 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	72,957,159 - 72,977,236 (+)	NCBI

Lat2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	134,628,957 - 134,648,637 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	134,628,876 - 134,643,879 (-)	Ensembl		GRCm39 Ensembl
GRCm38	5	134,600,103 - 134,619,783 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	134,600,022 - 134,615,025 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	135,076,135 - 135,090,893 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	134,884,892 - 134,899,650 (-)	NCBI		MGSCv36	mm8
Celera	5	131,608,314 - 131,623,075 (-)	NCBI		Celera
Cytogenetic Map	5	G2	NCBI
cM Map	5	74.7	NCBI

Lat2
(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	NW_004955456	13,674,190 - 13,688,611 (-)	NCBI	ChiLan1.0	ChiLan1.0

LAT2
(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	90,667,421 - 90,698,260 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	138,932,089 - 138,962,892 (-)	NCBI		NHGRI_mPanPan1
PanPan1.1	7	81,350,666 - 81,377,115 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	81,350,666 - 81,377,115 (+)	Ensembl	panpan1.1		panPan2

LAT2
(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	6,160,939 - 6,175,271 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	6,161,542 - 6,173,294 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	7,859,266 - 7,872,992 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	5,975,446 - 5,989,987 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	5,975,446 - 5,990,000 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	5,966,577 - 5,980,984 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	5,914,054 - 5,928,728 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	6,077,458 - 6,092,227 (-)	NCBI		UU_Cfam_GSD_1.0

Lat2
(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	130,774,449 - 130,785,905 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936543	3,250,956 - 3,262,668 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LAT2
(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	11,352,579 - 11,372,092 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	11,353,213 - 11,372,100 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	11,036,844 - 11,055,323 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LAT2
(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	8,848,971 - 8,865,558 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	28	8,848,638 - 8,865,574 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666070	7,714,089 - 7,732,600 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lat2
(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 1.0	NW_004624740	13,745,949 - 13,764,869 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Lat2
159 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	64
Count of miRNA genes:	60
Interacting mature miRNAs:	63
Transcripts:	ENSRNOT00000034629
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 (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

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	2	1	8		19						3	9
Low	1	24	49	41		41	8	10	62	31	33	2	8
Below cutoff		14						1	10	4	5

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_173840	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598357	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598358	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598359	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089531	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089532	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089533	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089534	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005491642	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005491643	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB219140	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC091000	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC135741	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY170849	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473973	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DQ294696	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DQ294697	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DQ294698	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DQ294699	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ226685	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ231408	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ235223	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000034629 ⟹ ENSRNOP00000031304

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	22,104,219 - 22,118,275 (+)	Ensembl
Rnor_6.0 Ensembl	12	25,119,355 - 25,125,749 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000093800 ⟹ ENSRNOP00000083189

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	22,104,219 - 22,118,275 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000098558 ⟹ ENSRNOP00000079065

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	22,109,832 - 22,118,288 (+)	Ensembl

RefSeq Acc Id:

NM_173840 ⟹ NP_776212

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,715 - 27,754,760 (+)	NCBI
mRatBN7.2	12	22,104,242 - 22,118,289 (+)	NCBI
Rnor_6.0	12	25,119,379 - 25,125,733 (+)	NCBI
Rnor_5.0	12	27,114,507 - 27,128,775 (+)	NCBI
RGSC_v3.4	12	23,174,554 - 23,180,908 (+)	RGD
Celera	12	23,873,387 - 23,879,734 (+)	RGD

Sequence:

show sequence

ATGAATGCCGAGTTGGAGCTGCTGTGGCCACTGTCAGGACTGTTGCTGCTGCTGCTCTTGGGGA
CCACAGCTTGGCTGTGTGTCCAGTGCTCCCGCCCAGGGGTGAAGAGAAATGAGAAAATCTACGA
GCAGAGGAACCAGCAAGAAAATGAACAGAGCGTAGCCTCATCTCAGACGTACTCCCTGGCCAGG
CCGGTGCGGACAGGACTCCAGATGGACGCAGCCTCAAACAAGTCATTTGAGAGGAAGAACAAGC
TGCTTTTCTCCCACCTGGAGGGTCCTGAGTCCCCTAGGTACCAGAACTTCTACAAAGGAAGCAG
ACGGGAGTCTGATGCTGCCTATGTAGATCCCATCCCCACAGACTACTACAACTGGGGATGTTTC
CAGAAGCCCCCAGAAGACAATGATTCCAACTCCTACGAGAATGTGCTCATCTGCAAGCCCAGCA
CCCCCGAGTCAGGTACTGAGGAATCCGAGGATTACCAGAACTCGGTATCCATCCTTCAGTGGCG
AGAATCCAAGAGGACTATGGGTGCACGCACGTCCCCATCAGGAAGCCCAGACGAGGAGCCAGAT
TACGTGAATGGGGATGTGGCCACGACGGAGAAAATCTAG

hide sequence

RefSeq Acc Id:

XM_017598358 ⟹ XP_017453847

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,653 - 27,754,755 (+)	NCBI
mRatBN7.2	12	22,104,179 - 22,118,294 (+)	NCBI
Rnor_6.0	12	25,119,846 - 25,128,381 (+)	NCBI

Sequence:

show sequence

AAATGTTCCTGCCCTCTGGCCTCAGCTTCCTGAGCCCTGGGATCACAGACCTGTGTCACCACAC
CCAGCTGACAAGAACCCTCTCAGTGACAGGCAGCTGGAAGGGACAGCCTGGTGGAGTTACAAAG
GGGAGGAGGGGTTCCAGACTTCAGCCCTCCCCCACTGCACCCCCTGAGTTCAGGGACACTAGCT
ACGCCATTTCTGTTCTTGCAGGGGTGAAGAGAAATGAGAAAATCTACGAGCAAAGGAACCAGCA
AGAAAATGAACAGAGCGTAGCCTCGTCTCAGACGTACTCCCTGGCCAGGCCGGTGCGGACAGGA
CTCCAGATGGACGCAGCCTCAAACAAGTCATTTGAGAGGAAGAACAAGCTGCTTTTCTCCCACC
TGGAGGGAAGCAGACGGGAGTCTGATGCTGCCTATGTAGATCCCATCCCCACGGACTACTACAA
CTGGGGATGTTTCCAGAAGCCCCCAGAAGACAATGATTCCAACTCCTACGAGAATGTGCTCATC
TGCAAGCCCAGCACCCCCGAGTCAGGTACTGAGGAATCCGAGGATTACCAGAACTCGGTATCCA
TCCTTCAGTGGCGAGAATCCAAGAGGACTATGGGTGCACGCACGTCCCCATCAGGAAGCCCAGA
CGAGGAGCCAGATTACGTGAATGGGGATGTGGCCACGACGGAGAAAATCTAGGAGAGAATCCAA
AGGAAGGGCCTGAGGATCAGGAGCCGACTGTTTACTGCCTGCTGTATAAAGCCCTGACTGTGGC
TGCTCCTGGGAGGGGCACCAGAACTGCCTGACACTGCCTGGGAGACATTGGAATCACCAGGGCT
GCAAGTGATGCTCCGGACTTCTCAGGGACAAAGCAAGTGTCCAGGGGATATTGACTGTGCTGAC
TGGAAGCCCAGGACCTGAGGCAGGATGCATCCCCAGTCCCACATCTAAAATGCAGCACAACATT
GGCACTTGTGGGTTTTGTTTTGGCTGTAGGTCTAAATTGTTCAGGCTGATGTCAAACTTGCAAT
CCTCCAGCCTCAGCCCTTGTGCTGGGATCACGTTATACCACCACACCTGACTTCGTAGGGTGGT
TTTGTTTTTTTTTTTGTTTTTTTTTCCTTTCCTTGTTTGAACCTCAAACTACTTATGAATGTTG
ATTTCTGGAACTGTTACCATGACTTTTCCGGTAGTTAACTTAAGTTGCTGGAGCCGTATTTAAT
GTTGTTAATGTCAGGGGACTCCCCGTTTCAGAGCATTAAATGTAGTAGCCTTAGCAGAAGAATG
GGGTGTGGGGTAACCTGAGATTGCCTTGGTTTCTTACGAGGCTCCAGTTTGTTCTGATTTTCCA
TTCCTGCGGGGGGGAACCTTGTGGGCCAGTGATAAAGAAATAAAACCACCCCCTCATCAAACCT
CAGGAAACCCTGTGTGTAAGAGCAGGCACAGCGCACATGCCTTTTAGACACCTTTTCCTGTGTG
TTCCTAGGGTCTACCATCTGCTGTTCCTCTCCATTATTTTAACAGTCACACTGTGTAGCCCCTG
GCTGGCCTGGAACTTGCTGTATAAAGCAGGCTGGCCCTAA

hide sequence

RefSeq Acc Id:

XM_039089531 ⟹ XP_038945459

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,654 - 27,754,755 (+)	NCBI
mRatBN7.2	12	22,104,180 - 22,118,289 (+)	NCBI

RefSeq Acc Id:

XM_039089532 ⟹ XP_038945460

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,647 - 27,751,122 (+)	NCBI
mRatBN7.2	12	22,104,173 - 22,114,650 (+)	NCBI

RefSeq Acc Id:

XM_039089533 ⟹ XP_038945461

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,647 - 27,751,122 (+)	NCBI
mRatBN7.2	12	22,104,173 - 22,114,650 (+)	NCBI

RefSeq Acc Id:

XM_039089534 ⟹ XP_038945462

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,691 - 27,754,755 (+)	NCBI
mRatBN7.2	12	22,104,223 - 22,118,289 (+)	NCBI

RefSeq Acc Id:

XR_005491642

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,648 - 27,751,776 (+)	NCBI
mRatBN7.2	12	22,104,174 - 22,115,308 (+)	NCBI

RefSeq Acc Id:

XR_005491643

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	27,740,648 - 27,751,776 (+)	NCBI
mRatBN7.2	12	22,104,174 - 22,115,308 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_776212	(Get FASTA)	NCBI Sequence Viewer
	XP_017453847	(Get FASTA)	NCBI Sequence Viewer
	XP_038945459	(Get FASTA)	NCBI Sequence Viewer
	XP_038945460	(Get FASTA)	NCBI Sequence Viewer
	XP_038945461	(Get FASTA)	NCBI Sequence Viewer
	XP_038945462	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAO12808	(Get FASTA)	NCBI Sequence Viewer
	ABB88414	(Get FASTA)	NCBI Sequence Viewer
	ABB88415	(Get FASTA)	NCBI Sequence Viewer
	ABB88416	(Get FASTA)	NCBI Sequence Viewer
	ABB88417	(Get FASTA)	NCBI Sequence Viewer
	EDM13420	(Get FASTA)	NCBI Sequence Viewer
	EDM13421	(Get FASTA)	NCBI Sequence Viewer
	EDM13422	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000031304
	ENSRNOP00000031304.4
	ENSRNOP00000079065.1
	ENSRNOP00000083189
	ENSRNOP00000083189.1
	ENSRNOP00065001473
GenBank Protein	Q8CGL2	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_776212 ⟸ NM_173840

- UniProtKB:

A6J0I1 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MNAELELLWPLSGLLLLLLLGTTAWLCVQCSRPGVKRNEKIYEQRNQQENEQSVASSQTYSLAR
PVRTGLQMDAASNKSFERKNKLLFSHLEGPESPRYQNFYKGSRRESDAAYVDPIPTDYYNWGCF
QKPPEDNDSNSYENVLICKPSTPESGTEESEDYQNSVSILQWRESKRTMGARTSPSGSPDEEPD
YVNGDVATTEKI

hide sequence

RefSeq Acc Id:	XP_017453847 ⟸ XM_017598358
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I5ZWF7 (UniProtKB/TrEMBL), A6J0I2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MFLPSGLSFLSPGITDLCHHTQLTRTLSVTGSWKGQPGGVTKGRRGSRLQPSPTAPPEFRDTSY AISVLAGVKRNEKIYEQRNQQENEQSVASSQTYSLARPVRTGLQMDAASNKSFERKNKLLFSHL EGSRRESDAAYVDPIPTDYYNWGCFQKPPEDNDSNSYENVLICKPSTPESGTEESEDYQNSVSI LQWRESKRTMGARTSPSGSPDEEPDYVNGDVATTEKI hide sequence

RefSeq Acc Id:

ENSRNOP00000031304 ⟸ ENSRNOT00000034629

RefSeq Acc Id:	XP_038945460 ⟸ XM_039089532
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038945461 ⟸ XM_039089533
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038945459 ⟸ XM_039089531
- Peptide Label:	isoform X1
- UniProtKB:	Q8CGL2 (UniProtKB/Swiss-Prot)

RefSeq Acc Id:	XP_038945462 ⟸ XM_039089534
- Peptide Label:	isoform X5

RefSeq Acc Id:

ENSRNOP00000083189 ⟸ ENSRNOT00000093800

RefSeq Acc Id:

ENSRNOP00000079065 ⟸ ENSRNOT00000098558

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q8CGL2-F1-model_v2	AlphaFold	Q8CGL2	1-204	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:631397	AgrOrtholog
BioCyc Gene	G2FUF-19580	BioCyc
Ensembl Genes	ENSRNOG00000021856	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOG00065001581	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000034629	ENTREZGENE
	ENSRNOT00000034629.5	UniProtKB/TrEMBL
	ENSRNOT00000093800.1	UniProtKB/TrEMBL
	ENSRNOT00000098558.1	UniProtKB/TrEMBL
	ENSRNOT00065002114	UniProtKB/Swiss-Prot
InterPro	LAT2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:317676	UniProtKB/Swiss-Prot
NCBI Gene	317676	ENTREZGENE
PANTHER	LINKER FOR ACTIVATION OF T-CELLS FAMILY MEMBER 2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR15646	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	LAT2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Lat2	PhenoGen
RatGTEx	ENSRNOG00000021856	RatGTEx
	ENSRNOG00065001581	RatGTEx
UniProt	A0A8I5ZM71_RAT	UniProtKB/TrEMBL
	A0A8I5ZWF7	ENTREZGENE, UniProtKB/TrEMBL
	A6J0I1	ENTREZGENE, UniProtKB/TrEMBL
	A6J0I2	ENTREZGENE, UniProtKB/TrEMBL
	A6J0I3_RAT	UniProtKB/TrEMBL
	G3V8Z1_RAT	UniProtKB/TrEMBL
	NTAL_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-11-17	Lat2	linker for activation of T cells family, member 2			Symbol and Name updated	1299863	APPROVED
2004-12-14	Wbscr5	Williams-Beuren syndrome chromosome region 5 homolog (human)			Symbol and Name status set to approved	1299863	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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD