Nrcam MGI Mouse Gene Detail - MGI:104750 - neuronal cell adhesion molecule

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_104750	protein coding gene	Chr12:44375568-44651977 (+)
129S1/SvImJ	ENSMUSG00200011007	protein coding gene	Chr12:36490238-36563011 (+)
129S1/SvImJ	ENSMUSG00200011370	protein coding gene	Chr12:36287045-36414513 (+)
A/J	ENSMUSG00195017743	protein coding gene	Chr12:38896699-39034111 (+)
A/J	ENSMUSG00195017343	protein coding gene	Chr12:39100784-39173568 (+)
AKR/J	ENSMUSG00220005027	protein coding gene	Chr12:36914372-37051775 (+)
AKR/J	ENSMUSG00220004969	protein coding gene	Chr12:37118442-37191216 (+)
BALB/cJ	ENSMUSG00180003500	protein coding gene	Chr12:38087869-38160657 (+)
BALB/cJ	ENSMUSG00180003520	protein coding gene	Chr12:37883805-38021206 (+)
C3H/HeJ	ENSMUSG00175017068	protein coding gene	Chr12:41155436-41228215 (+)
C3H/HeJ	ENSMUSG00175017278	protein coding gene	Chr12:40951392-41088769 (+)
C57BL/6NJ	ENSMUSG00215010301	protein coding gene	Chr12:37316636-37444117 (+)
C57BL/6NJ	ENSMUSG00215009172	protein coding gene	Chr12:37519845-37592627 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017726	protein coding gene	Chr12:40376406-40639562 (+)
CAST/EiJ	ENSTCUG00005003517	protein coding gene	Chr12:37814595-37889235 (+)
CBA/J	ENSMUSG00210016077	protein coding gene	Chr12:37426018-37563385 (+)
CBA/J	ENSMUSG00210016060	protein coding gene	Chr12:37630059-37702838 (+)
DBA/2J	ENSMUSG00185019693	protein coding gene	Chr12:39633152-39701120 (+)
DBA/2J	ENSMUSG00185019749	protein coding gene	Chr12:39434975-39566441 (+)
FVB/NJ	ENSMUSG00205001287	protein coding gene	Chr12:37506948-37579739 (+)
FVB/NJ	ENSMUSG00205001330	protein coding gene	Chr12:37301283-37428763 (+)
JF1/MsJ	ENSUMUG00000002630	protein coding gene	Chr12:43832437-43907299 (+)
LP/J	ENSMUSG00230009838	protein coding gene	Chr12:46428110-46555558 (+)
LP/J	ENSMUSG00230009727	protein coding gene	Chr12:46631282-46704064 (+)
NOD/ShiLtJ	ENSMUSG00190003572	protein coding gene	Chr12:36635951-36703917 (+)
NOD/ShiLtJ	ENSMUSG00190003577	protein coding gene	Chr12:36437756-36569240 (+)
NZO/HlLtJ	ENSMUSG00225031145	protein coding gene	Chr12:48840024-48914881 (+)
NZO/HlLtJ	ENSMUSG00225031258	protein coding gene	Chr12:48646729-48773986 (+)
PWK/PhJ	ENSLUMG00010012458	protein coding gene	Chr12:37931854-38006672 (+)
SPRET/EiJ	ENSMSPG00010001913	protein coding gene	Chr12:38986123-39053520 (+)
WSB/EiJ	ENSIUOG00005001204	protein coding gene	Chr12:37445464-37518796 (+)

Length	Strain/Species	Flank
genomic	ENSMUSG00000020598	Ensembl Gene Model \| MGI Sequence Detail	273080	C57BL/6J	± kb
transcript	ENSMUST00000020939	Ensembl \| MGI Sequence Detail	4469	Not Applicable
polypeptide	ENSMUSP00000020939	Ensembl \| MGI Sequence Detail	1256	Not Applicable

TSS for Nrcam:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr113362	Chr12:44375324-44375331 (+)	-340 bp
Tssr113363	Chr12:44375343-44375356 (+)	-318 bp
Tssr113364	Chr12:44375632-44375646 (+)	-29 bp
Tssr113365	Chr12:44375665-44375737 (+)	33 bp
Tssr113366	Chr12:44375747-44375792 (+)	102 bp
Tssr113367	Chr12:44375975-44375992 (+)	316 bp
Tssr113368	Chr12:44447613-44447617 (+)	71,947 bp
Tssr3834	Chr12:44485795-44485824 (+)	110,142 bp
Tssr113369	Chr12:44485829-44485852 (+)	110,173 bp
Tssr113370	Chr12:44485861-44485872 (+)	110,199 bp
Tssr113371	Chr12:44572340-44572345 (+)	196,675 bp
Tssr113372	Chr12:44572389-44572405 (+)	196,729 bp
Tssr113373	Chr12:44572421-44572443 (+)	196,764 bp
Tssr3835	Chr12:44572455-44572458 (+)	196,789 bp
Tssr113374	Chr12:44572475-44572485 (+)	196,812 bp
Tssr113375	Chr12:44572494-44572513 (+)	196,836 bp
Tssr113376	Chr12:44572521-44572524 (+)	196,855 bp
Tssr113377	Chr12:44575691-44575716 (+)	200,036 bp
Tssr113378	Chr12:44593549-44593558 (+)	217,886 bp

Nrcam is Candidate Gene for:

QTL	Genetic Location*	Genome Location (GRCm39)	Reference	QTL Note
Fl1sa	Chr12, 13.69 cM		J:244215	Nonalcoholic fatty liver disease (NAFLD) is a multifactorial disease caused by interactions between environmental and genetic factors. It was previously determined that SMXA-5 mice develop severe fatty liver on a high fat diet, although parental SM/J and A/J mice were resistant to fatty liver. Quantitative trait analysis using (SM/J x SMxA-5)F2 intercrossed mice identified a significant QTL, Fl1sa (fatty liver 1 in SMXA), for liver weight, liver triglyceride and total lipid content on centromere-53.06 Mb of mouse Chromosome 12. The A/J allele at Fl1sa was associated with the fatty liver. [J:124974] In a subsequent study using the livers from A/J-Chr 12 consomic and A/J mice that were fed a high fat diet three candidate genes were identified, Iah1, Rrm2 and Prkd1 using DNA microarray analysis. [J: 240255] The goal of the current study was to narrow the previously identified Fl1sa region by genetic dissection using novel congenic mice to identify candidate genes within the narrowed Fl1sa region. Two strains of congenic mice, A.SM-(centromere - D12Mit85)/J (R2) and A.SM-(D12Mit85-D12Mit112)/J (R3), were constructed from parental A/J and A/JChr 12 . Microsatellite markers and SNPs were used for the genotyping of R2 and R3 genomic DNA. Physical positions were taken from GRCm38.P4. The lipid accumulation in the respective livers was analyzed. As the liver triglyceride content in R2 and R3 congenic mice was significantly lower than in A/J mice. Male A/J, A/J-Chr12, R2 and R3 mice were fed standard chow until 6 weeks of age and thereafter fed a high fat diet from 6 to 13 weeks of age. At 13 weeks of age all mice were sacrificed after a 4 hour fast. The liver and white adipose tissue (subcutaneous fat, epididymal fat, mesenteric fat and retroperitoneal fat) were harvested and weighed. Blood sample were collected to measure serum lipids. Serum triglyceride, cholesterol and hepatic triglyceride content were measured. Whole transcripts from epididymal fats were measured using a Mouse Genome ST 2.0 array. Liver triglyceride content was significantly lower in A/J-Chr 12, R2 and R3 mice compared with that of A/J mice. Liver triglyceride and liver total lipid in R2 and R3 mice showed intermediate values between those of A/J and A/J-Chr 12 mice. The results suggested that the genes responsible for fatty liver existed in the SM/J region in strain R2 (centromere-29.20 Mb) and in the SM/J region in strain R3 (29.20-46.75 Mb) of Chromosome 12, Fig 1. Subsequently, in both of the narrowed Fl1sa regions microarray analysis of liver and epididymal fat from A/J and A/J-Chr 12 mice was performed in an attempt to identify candidate genes. Significant differences in gene expression levels in epididymal fat analysis were confirmed in 6 candidate genes: Ntsr2, Zfp125, Gdap10, Nrcam, Stxbp6 and Nova1 between the two strains.

*cM position of peak correlated region/marker

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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