Sgms1 (sphingomyelin synthase 1) - Rat Genome Database

Name: Sgms1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Sgms1 (sphingomyelin synthase 1) Rattus norvegicus

Analyze

Symbol:

Sgms1

Name:

sphingomyelin synthase 1

RGD ID:

727912

Description:

Predicted to enable ceramide cholinephosphotransferase activity; ceramide phosphoethanolamine synthase activity; and sphingomyelin synthase activity. Involved in cellular response to lipopolysaccharide; cellular response to tumor necrosis factor; and positive regulation of gene expression. Predicted to be located in Golgi membrane and Golgi trans cisterna. Used to study pulmonary edema. Biomarker of pulmonary edema. Orthologous to human SGMS1 (sphingomyelin synthase 1); PARTICIPATES IN Fabry disease pathway; Gaucher's disease pathway; Krabbe disease pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-diaminodiphenylmethane.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

MGC93062; Mob; mob-1; phosphatidylcholine:ceramide cholinephosphotransferase 1; Tmem23; transmembrane protein 23

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SGMS1 (sphingomyelin synthase 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Sgms1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Sgms1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SGMS1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SGMS1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sgms1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SGMS1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SGMS1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sgms1 (sphingomyelin synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SGMS1 (sphingomyelin synthase 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Sgms1 (sphingomyelin synthase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	zgc:91976	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	sgms1 (sphingomyelin synthase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	sms-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	sgms1	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	229,996,673 - 230,259,591 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	229,998,119 - 230,259,603 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	238,362,330 - 238,621,023 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	245,292,015 - 245,550,709 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	238,127,826 - 238,388,826 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	250,692,448 - 250,951,685 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	250,691,370 - 250,951,697 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	257,923,300 - 258,182,214 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	236,133,441 - 236,396,631 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	236,319,654 - 236,381,276 (-)	NCBI
Celera	1	227,118,516 - 227,377,318 (-)	NCBI		Celera
Cytogenetic Map	1	q52	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

megacolon (ISO)

pulmonary edema (IDA,IEP,IMP)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dichloroethane (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

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

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-diaminodiphenylmethane (EXP)

4,4'-sulfonyldiphenol (ISO)

8-Br-cAMP (ISO)

acetamide (EXP)

acrolein (ISO)

acrylamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

aristolochic acid A (ISO)

Aroclor 1254 (ISO)

arsane (ISO)

arsenic atom (ISO)

atrazine (EXP,ISO)

benzo[a]pyrene (EXP,ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP,ISO)

bortezomib (ISO)

cadmium atom (ISO)

calcium silicate (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chloroprene (ISO)

chlorpyrifos (ISO)

chrysene (ISO)

ciguatoxin CTX1B (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

decabromodiphenyl ether (EXP)

dexamethasone (EXP,ISO)

diazinon (ISO)

dibutyl phthalate (ISO)

diuron (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

fulvestrant (ISO)

gentamycin (EXP)

glyphosate (EXP)

heptachlor (EXP)

indometacin (ISO)

isoprenaline (ISO)

leflunomide (EXP,ISO)

lithocholic acid (ISO)

melphalan (ISO)

methamphetamine (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

oxaliplatin (EXP)

ozone (EXP,ISO)

paracetamol (EXP,ISO)

PCB138 (ISO)

pentachlorophenol (ISO)

perfluorooctanoic acid (ISO)

phenobarbital (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

SB 431542 (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

T-2 toxin (EXP)

tamoxifen (ISO)

testosterone (EXP)

tetrachloromethane (ISO)

tetracycline (ISO)

tetraphene (ISO)

titanium dioxide (ISO)

topotecan (EXP)

tungsten (ISO)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

apoptotic process (IEA)

cellular response to lipopolysaccharide (IEP)

cellular response to tumor necrosis factor (IEP)

ceramide biosynthetic process (IBA,ISO)

negative regulation of extrinsic apoptotic signaling pathway (ISO)

phosphorylation (IEA)

positive regulation of gene expression (IDA)

sphingomyelin biosynthetic process (IBA,ISO,ISS)

Cellular Component

Golgi membrane (ISO,ISS)

Golgi trans cisterna (ISO)

membrane (IEA)

Molecular Function

ceramide cholinephosphotransferase activity (IBA,ISO,ISS)

ceramide phosphoethanolamine synthase activity (ISO)

kinase activity (IEA)

phosphotransferase activity, for other substituted phosphate groups (IEA)

sphingomyelin synthase activity (IBA,ISO,ISS)

Molecular Pathway Annotations Click to see Annotation Detail View

Fabry disease pathway (ISO)

Gaucher's disease pathway (ISO)

Krabbe disease pathway (ISO)

metachromatic leukodystrophy pathway (ISO)

sphingolipid metabolic pathway (IEA,ISO)

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.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	NCBI rat LocusLink and RefSeq merged data October 15, 2003	NCBI rat LocusLink and RefSeq merged data October 15, 2003
5.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
6.	SMPDB Annotation Import Pipeline	Pipeline to import SMPDB annotations from SMPDB into RGD
7.	MOB-1 and TNF-alpha interact to induce microvascular lung injury.	Rabinovici R, etal., Shock 2002 Sep;18(3):261-4.
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
11.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:14685263	PMID:14976195	PMID:15489334	PMID:16226406	PMID:19946888	PMID:21980337	PMID:25605874	PMID:26274505	PMID:29294205

Genomics

Comparative Map Data

Sgms1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	229,996,673 - 230,259,591 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	229,998,119 - 230,259,603 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	238,362,330 - 238,621,023 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	245,292,015 - 245,550,709 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	238,127,826 - 238,388,826 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	250,692,448 - 250,951,685 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	250,691,370 - 250,951,697 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	257,923,300 - 258,182,214 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	236,133,441 - 236,396,631 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	236,319,654 - 236,381,276 (-)	NCBI
Celera	1	227,118,516 - 227,377,318 (-)	NCBI		Celera
Cytogenetic Map	1	q52	NCBI

SGMS1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	50,305,600 - 50,625,184 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	50,305,586 - 50,625,163 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	52,065,360 - 52,383,716 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	51,735,351 - 52,053,743 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	51,735,351 - 52,053,743	NCBI
Celera	10	75,221,199 - 75,539,540 (-)	NCBI		Celera
Cytogenetic Map	10	q11.23	NCBI
HuRef	10	46,064,748 - 46,384,168 (-)	NCBI		HuRef
CHM1_1	10	52,347,208 - 52,665,557 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	51,153,786 - 51,472,591 (-)	NCBI		T2T-CHM13v2.0

Sgms1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	32,100,127 - 32,367,285 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	19	32,100,127 - 32,367,114 (-)	Ensembl		GRCm39 Ensembl
GRCm38	19	32,122,727 - 32,389,885 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	32,122,727 - 32,389,714 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	19	32,197,217 - 32,462,944 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	19	32,188,727 - 32,314,032 (-)	NCBI		MGSCv36	mm8
Celera	19	32,909,133 - 33,168,704 (-)	NCBI		Celera
Cytogenetic Map	19	C1	NCBI
cM Map	19	26.68	NCBI

Sgms1
(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_004955425	5,784,751 - 5,822,488 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955425	5,507,905 - 5,819,357 (+)	NCBI	ChiLan1.0	ChiLan1.0

SGMS1
(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	10	62,625,068 - 62,939,176 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	46,960,159 - 47,273,353 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	49,076,976 - 49,392,937 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	49,076,984 - 49,116,154 (-)	Ensembl	panpan1.1		panPan2

SGMS1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	26	37,243,388 - 37,472,806 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	26	37,244,900 - 37,348,802 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	26	37,128,050 - 37,357,239 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	26	38,775,863 - 39,005,440 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	26	38,776,907 - 39,026,132 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	26	36,683,424 - 36,912,359 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	26	36,264,203 - 36,493,530 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	26	37,503,839 - 37,732,954 (-)	NCBI		UU_Cfam_GSD_1.0

Sgms1
(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_024407213	76,808,901 - 77,088,722 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936735	1,943,352 - 1,984,141 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936735	1,702,754 - 1,984,141 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SGMS1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	99,147,272 - 99,185,082 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	99,147,266 - 99,458,111 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	107,987,111 - 108,238,352 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SGMS1
(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	9	80,524,115 - 80,646,332 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	80,524,055 - 80,562,945 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	41,180,929 - 41,498,073 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sgms1
(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_004624791	13,097,808 - 13,146,544 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624791	13,096,268 - 13,490,220 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Sgms1
755 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	97
Count of miRNA genes:	76
Interacting mature miRNAs:	81
Transcripts:	ENSRNOT00000054761
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
7794788	Mcs32	Mammary carcinoma susceptibility QTL 32	2.61		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	1	115540693	238914717	Rat
7421630	Bp362	Blood pressure QTL 362		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	118608292	241799120	Rat
2302378	Insul11	Insulin level QTL 11	3.25		blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	144267353	251128347	Rat
724531	Uae5	Urinary albumin excretion QTL 5	4		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	1	150700142	252085212	Rat
1578759	Uae30	Urinary albumin excretion QTL 30	3.3	0.003	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	150700247	252085048	Rat
1578778	Pur4	Proteinuria QTL 4	3.3	0.003	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	1	150700247	252085048	Rat
1354610	Bw34	Body weight QTL 34	4.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
1354646	Kidm18	Kidney mass QTL 18	5.7		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	151162512	256448636	Rat
1354661	Bw33	Body weight QTL 33	5.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
1549837	Hcar15	Hepatocarcinoma resistance QTL 15		0.05	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	153136852	260522016	Rat
1354580	Scort1	Serum corticosterone level QTL 1	3.4		blood corticosterone amount (VT:0005345)	blood corticosterone level (CMO:0001172)	1	156677124	256448636	Rat
2292220	Bp306	Blood pressure QTL 306	3.47	0.00087	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	164310393	243914901	Rat
738032	Hcas5	Hepatocarcinoma susceptibility QTL 5	3.12		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	176426412	257976495	Rat
1354624	Cm35	Cardiac mass QTL35	5.7		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	177227632	256448636	Rat
1354652	Kidm20	Kidney mass QTL 20	4.3		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	177227632	256448636	Rat
634321	Hc1	Hypercalciuria QTL 1	2.91		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	1	178810256	240830002	Rat
1578763	Kidm29	Kidney mass QTL 29	3.3	0.0001	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	1	179567751	260522016	Rat
8655655	Arrd2	Age-related retinal degeneration QTL 2	7.79		retinal layer morphology trait (VT:0003727)	percentage of study population developing retinopathy during a period of time (CMO:0002453)	1	183970203	243914901	Rat
8655855	Arrd3	Age-related retinal degeneration QTL 3	3.07		lens clarity trait (VT:0001304)	cataract incidence/prevalence measurement (CMO:0001585)	1	183970203	243914901	Rat
2312564	Glom18	Glomerulus QTL 18	2.4	0.003	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	1	185356336	231689108	Rat
1358898	Bp255	Blood pressure QTL 255	3.6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	191019702	246062233	Rat
10059590	Kidm44	Kidney mass QTL 44	3.42	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	1	191033875	236033875	Rat
1358191	Ept10	Estrogen-induced pituitary tumorigenesis QTL 10	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	1	192825253	243914732	Rat
8552891	Epfw5	Epididymal fat weight QTL 5	4.4		epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	1	193113876	238113876	Rat
1600388	Niddm67	Non-insulin dependent diabetes mellitus QTL 67	5.84	0.000004	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	195804352	257091168	Rat
1600395	Niddm69	Non-insulin dependent diabetes mellitus QTL 69	4.14	0.0002	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	195804352	257091168	Rat
1600396	Niddm68	Non-insulin dependent diabetes mellitus QTL 68	4.97	0.0003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	195804352	257091168	Rat
631658	Cm7	Cardiac mass QTL 7	5.32	0.0001	aorta mass (VT:0002845)	aorta weight (CMO:0000076)	1	196248093	241248093	Rat
1358292	Cm37	Cardiac mass QTL 37	6.2	0.00000081	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	1	196248093	241248093	Rat
1600374	Mcs17	Mammary carcinoma susceptibility QTL 17	3		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	1	197670404	242670404	Rat
1641926	Teswt2	Testicular weight QTL 2	2.82		testis mass (VT:1000644)	both testes wet weight (CMO:0000175)	1	197697768	238755659	Rat
2302375	Bw83	Body weight QTL 83	4.87	0.0002	body mass (VT:0001259)	body weight (CMO:0000012)	1	197697768	242697768	Rat
61376	Bp42	Blood pressure QTL 42	23.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	197814409	242814409	Rat
1298084	Thym4	Thymus enlargement QTL 4	10.68		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	1	197814409	242814409	Rat
1357335	Bw39	Body weight QTL 39	3.3		body mass (VT:0001259)	body weight (CMO:0000012)	1	197814409	242814409	Rat
634313	Niddm43	Non-insulin dependent diabetes mellitus QTL 43			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	199050459	259647894	Rat
2293694	Bss38	Bone structure and strength QTL 38	7.05	0.0001	femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	1	201554356	246554356	Rat
7394701	Uae46	Urinary albumin excretion QTL 46	3.6	0.0056	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	201554356	246554356	Rat
2300175	Bmd40	Bone mineral density QTL 40	15.4	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	1	201554356	246554356	Rat
2293655	Bss36	Bone structure and strength QTL 36	10.66	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	1	201554356	246554356	Rat
2293674	Bss39	Bone structure and strength QTL 39	7.1	0.0001	femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	1	201554356	246554356	Rat
10059587	Bw173	Body weight QTL 173	3.23	0.025	body mass (VT:0001259)	body weight (CMO:0000012)	1	202069611	247069611	Rat
1600363	Hc6	Hypercalciuria QTL 6	2.7		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	1	203995416	244113296	Rat
1600397	Edcs4	Endometrial carcinoma susceptibility QTL 4	2.2		uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	1	206081677	251081677	Rat
1357399	Bw45	Body weight QTL 45	3.05		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	1	206329708	251329708	Rat
1357404	Bw42	Body weight QTL 42	4.49	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	1	206329708	251329708	Rat
1358916	Kidm22	Kidney mass QTL 22	3.32		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	1	210702053	240947965	Rat
1358890	Bp259	Blood pressure QTL 259	3.06		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	210702053	260522016	Rat
2292216	Bw80	Body weight QTL 80	3.23	0.0019	body mass (VT:0001259)	body weight (CMO:0000012)	1	213533809	243914901	Rat
724538	Kidm1	Kidney mass QTL 1	3.2		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	213707201	252085212	Rat
734768	Niddm59	Non-insulin dependent diabetes mellitus QTL 59			body mass (VT:0001259)	body weight (CMO:0000012)	1	213843987	258843987	Rat
61455	Niddm7	Non-insulin dependent diabetes mellitus QTL 7	5.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	1	214537555	238757011	Rat
70211	Niddm24	Non-insulin dependent diabetes mellitus QTL 24	3.79		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	214647894	259647894	Rat
1549910	Bw54	Body weight QTL 54		0.05	body mass (VT:0001259)	body weight (CMO:0000012)	1	214647894	259647894	Rat
61327	Eae7	Experimental allergic encephalomyelitis QTL 7	5.6		body mass (VT:0001259)	change in body weight (CMO:0002045)	1	216255568	260522016	Rat
2302040	Pia35	Pristane induced arthritis QTL 35	3.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	1	216255568	260522016	Rat
1598821	Rf55	Renal function QTL 55	6.3		renal blood flow trait (VT:2000006)	ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)	1	218748008	257976495	Rat
61400	Niddm1	Non-insulin dependent diabetes mellitus QTL 1	11		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	218753689	245907899	Rat
724533	Rf51	Renal function QTL 51	5.3	0.0002	kidney plasma flow trait (VT:0005524)	renal plasma flow (CMO:0001914)	1	218753816	256448513	Rat
731175	Uae20	Urinary albumin excretion QTL 20	3.5	0.0018	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	221264111	259647894	Rat
10053715	Scort24	Serum corticosterone level QTL 24	2.13	0.0088	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	1	221414816	260522016	Rat
724552	Glom2	Glomerulus QTL 2	3.3	0.0001	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)	1	222363780	260522016	Rat
1600392	Bw123	Body weight QTL 123		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	1	223201027	260522016	Rat
2293700	Bmd27	Bone mineral density QTL 27	6.6	0.0001	femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	1	224054293	243747962	Rat
2293701	Bmd34	Bone mineral density QTL 34	8.3	0.0001	femur strength trait (VT:0010010)	femoral neck ultimate force (CMO:0001703)	1	224054293	243747962	Rat
734767	Niddm57	Non-insulin dependent diabetes mellitus QTL 57			body mass (VT:0001259)	body weight (CMO:0000012)	1	224054293	260122809	Rat
631843	Bw116	Body weight QTL 116	4.1	0.016	abdominal adipose amount (VT:1000220)	abdominal fat pad weight (CMO:0000088)	1	224054293	260122809	Rat
734769	Niddm58	Non-insulin dependent diabetes mellitus QTL 58			body mass (VT:0001259)	body weight (CMO:0000012)	1	224569538	260122809	Rat
631215	Stl8	Serum triglyceride level QTL 8	9.27	0.0001	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	1	225126575	260522016	Rat
1300108	Rf8	Renal function QTL 8	3.75		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	1	228581588	259647894	Rat
2316896	Gluco57	Glucose level QTL 57	7.2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	228985440	245907899	Rat

Markers in Region

RH130972

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	230,259,662 - 230,259,812 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	250,951,757 - 250,951,906	NCBI	Rnor6.0
Rnor_5.0	1	258,182,286 - 258,182,435	UniSTS	Rnor5.0
RGSC_v3.4	1	236,396,703 - 236,396,852	UniSTS	RGSC3.4
Celera	1	227,377,390 - 227,377,539	UniSTS
RH 3.4 Map	1	1616.42	UniSTS
Cytogenetic Map	1	q52	UniSTS

RH144312

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	230,112,036 - 230,112,170 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	250,804,285 - 250,804,418	NCBI	Rnor6.0
Rnor_5.0	1	258,035,048 - 258,035,181	UniSTS	Rnor5.0
RGSC_v3.4	1	236,249,020 - 236,249,153	UniSTS	RGSC3.4
Celera	1	227,229,997 - 227,230,130	UniSTS
Cytogenetic Map	1	q52	UniSTS

BE106238

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	230,032,447 - 230,032,623 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	250,725,102 - 250,725,277	NCBI	Rnor6.0
Rnor_5.0	1	257,955,954 - 257,956,129	UniSTS	Rnor5.0
RGSC_v3.4	1	236,168,282 - 236,168,457	UniSTS	RGSC3.4
Celera	1	227,150,244 - 227,150,419	UniSTS
RH 3.4 Map	1	1716.2	UniSTS
Cytogenetic Map	1	q52	UniSTS

BF055346

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	229,997,886 - 229,997,993 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	250,692,217 - 250,692,323	NCBI	Rnor6.0
Rnor_5.0	1	257,923,069 - 257,923,175	UniSTS	Rnor5.0
RGSC_v3.4	1	236,133,210 - 236,133,316	UniSTS	RGSC3.4
Celera	1	227,118,285 - 227,118,391	UniSTS
Cytogenetic Map	1	q52	UniSTS

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	43	46	37	13	37	8	10	52	35	37	11	8
Low			11	4	6	4		1	22		4
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_181386	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039080981	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039080983	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039080988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039080994	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039080997	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039080998	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081018	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005487754	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005487755	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AF461433	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY280961	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC078690	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC081693	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473953	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000047	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	KP710939	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	KP710940	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	KP710941	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	KR020017	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	KR020018	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000054761 ⟹ ENSRNOP00000051643

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	229,998,119 - 230,259,603 (-)	Ensembl
Rnor_6.0 Ensembl	1	250,692,449 - 250,951,697 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000079227 ⟹ ENSRNOP00000070714

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	230,032,127 - 230,119,931 (-)	Ensembl
Rnor_6.0 Ensembl	1	250,692,135 - 250,774,105 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000079942 ⟹ ENSRNOP00000075395

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	229,998,124 - 230,034,425 (-)	Ensembl
Rnor_6.0 Ensembl	1	250,692,452 - 250,727,079 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000087588 ⟹ ENSRNOP00000075286

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	250,691,370 - 250,727,218 (-)	Ensembl

RefSeq Acc Id:

NM_181386 ⟹ NP_852051

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,259,591 (-)	NCBI
Rnor_6.0	1	250,692,448 - 250,951,685 (-)	NCBI
Rnor_5.0	1	257,923,300 - 258,182,214 (-)	NCBI
RGSC_v3.4	1	236,133,441 - 236,396,631 (-)	RGD
Celera	1	227,118,516 - 227,377,318 (-)	RGD

Sequence:

show sequence

GGGAAACAACAGTGGAGAAAAGCATGGAGGAGGGCGACGGCTGTCCAAACAACTTCAGCAACCT
TCATCCTCTGTCCCCGGGAATGGGTCAGAACAGGGAAGCGGCAGGAGGAGCGATGCGGGCGCCT
TAGGAACGGGAACTCCTTTCCCCAACTTCCGCCCCTGGGGAAAAGCTGAAGCCATCAGCTCCAG
GAGAGCGGCTCTCCAATTCTCAGCCTTTAGGTTCTGGCTCTGGAGACAGCCTGTCCTCCCGGTA
TCGCCGGCGCCGCTGTACCCCCGCTGTAGACTAGCGGATTGCAGGTTGAAGGCAGGGTGAGTGG
TGCCGGAGGACAGACCTCGCCATTCGATCGTATTTAGAAGATAGCCACCCACTCGGAAGGGAAA
GCTACAGTGGCCGAAGAAGCTGTGATCTTTCAAGCAGGGCGCTGCCACTGGAGCACAGAGGAGG
GTATACAGAAGACAGCACGGACTGGAAGAAAGACTGATGAAGAGAAGTAACGGCATGATTGAGG
TGATGGAGATGAACGGGAACACACGGAGAAGCTAGTATCCTGCAGGAAGCCAAGATGAGGAGAG
TCTTTTTAAAATAATCCAAGGAAGAAACCTGTCCAGAAATGAGGCGACTTAATGTTCGGACACC
ATTGCATCAAGCGTTTTAAAACTGCCCTGACCATCTTGTCAAATGAGTCTCTGCTCATGAGACC
CAACAAGATGAACCAGCCAAGGAGGGATGGTGTCTTGCCCTGTCGGAACAGTGACTGCTGACGT
CTGAGAGCGAGCTGGGGGCGCCAAATGTTGTCTGCCAGTACCATGAAGGAAGTGGTTTACTGGT
CACCCAAGAAGGTGGCAGACTGGCTGCTGGAGAATGCTATGCCAGAATACTGTGAACCTCTGGG
GCATTTCACAGGCCAGGACCTAATCAACCTAACCCAAGAGGATTTCACAAAGCCTCCTCTGTGC
CGAGTCTCCTCTGACAATGGGCAGCGGCTCTTAGACATGATAGAGACCCTGAAGATGGAGCACC
ATATCGAAGCGCACAAGAATGGCCACGCCAACGGACACCTCAGCATTGGCGTCGACATTCCCAA
CCCTGACGGCAGCTTCAGCATCAAGATTAAACCCAACGGAATGCCAAATGGCTTCAGGAAAGAG
ATGATCAAGATCCCCATGCCGGAACCCGAGCGCTCCCAGTACCCCATGGAGTGGGGCAAGACTT
TGCTGGCCTTTCTTTACGCACTGTCCTGTTTTGTTCTCACTACAGTGATGATCTCGGTCGTCCA
TGAACGAGTGCCTCCTAAGGAGGTACAGCCTCCGCTACCGGACACGTTTTTTGACCATTTTAAC
CGGGTGCAGTGGGCGTTTTCTATTTGCGAAATTAACGGCATGATCCTTGTAGGACTCTGGTTAT
TTCAGTGGCTGCTCTTAAAATACAAGTCTATTATTAGCAGAAGATTTTTCTGCATAGTTGGCAC
GCTGTACCTGTACCGGTGTATTACAATGTATGTAACTACACTCCCAGTACCCGGCATGCACTTC
AACTGTTCTCCGAAGCTCTTTGGAGACTGGGAAGCTCAAGTGCGGAGGATAATGAAGCTCATTG
CTGGAGGTGGCTTGTCCATCACGGGCTCGCACAACATGTGTGGGGACTATCTGTACAGTGGACA
CACAGTCATGCTAACGCTCACCTACCTGTTTATCAAGGAGTATTCCCCTCGGCGGCTCTGGTGG
TACCACTGGATTTGCTGGCTCCTCAGCGTCGTTGGAATCTTCTGTATTCTCTTAGCGCATGACC
ACTACACTGTGGACGTGGTGGTAGCATATTACATCACCACAAGACTCTTCTGGTGGTATCACAC
GATGGCCAATCAGCAAGTGCTGAAGGAAGCTTCCCAGATGAACCTCCTGGCCAGAGTGTGGTGG
TACAGGCCATTTCAGTACTTTGAAAAGAACGTCCAAGGGATTGTACCTCGATCTTACCATTGGC
CCCTTCCCTGGCCGGTAGTCCACCTTAGTAGGCAAGTTAAATATAGCCGGCTGGTAAACGACAC
CTAACAGCCTCGCCGCCTAGGGGAACGAACGAGGAATGGTCCGAAGTGCTAAGAACTCCGTGAG
AGAAGACGCCATAGAGTAACCACCTCCCCTGCTATCTCTCAAGTTACCTTGACTGAACCCATTG
AGTTATCTGCTCAGCACTGTGATCTTTTTTTTTCTCTCCAAAGGACCCGCGTTGGACAACAATA
AAGAAAATTTACCATATCAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_039080981 ⟹ XP_038936909

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,258,099 (-)	NCBI

RefSeq Acc Id:

XM_039080983 ⟹ XP_038936911

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,257,746 (-)	NCBI

RefSeq Acc Id:

XM_039080988 ⟹ XP_038936916

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,130,002 (-)	NCBI

RefSeq Acc Id:

XM_039080994 ⟹ XP_038936922

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,258,099 (-)	NCBI

RefSeq Acc Id:

XM_039080997 ⟹ XP_038936925

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,258,099 (-)	NCBI

RefSeq Acc Id:

XM_039080998 ⟹ XP_038936926

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,119,752 (-)	NCBI

RefSeq Acc Id:

XM_039081001 ⟹ XP_038936929

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,106,741 (-)	NCBI

RefSeq Acc Id:

XM_039081004 ⟹ XP_038936932

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,086,241 (-)	NCBI

RefSeq Acc Id:

XM_039081009 ⟹ XP_038936937

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,996,673 - 230,072,230 (-)	NCBI

RefSeq Acc Id:

XM_039081014 ⟹ XP_038936942

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	230,011,322 - 230,258,099 (-)	NCBI

RefSeq Acc Id:

XM_039081018 ⟹ XP_038936946

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	230,022,238 - 230,258,099 (-)	NCBI

RefSeq Acc Id:

XR_005487754

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	229,998,118 - 230,258,099 (-)	NCBI

RefSeq Acc Id:

XR_005487755

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	230,022,366 - 230,258,099 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_852051	(Get FASTA)	NCBI Sequence Viewer
	XP_038936909	(Get FASTA)	NCBI Sequence Viewer
	XP_038936911	(Get FASTA)	NCBI Sequence Viewer
	XP_038936916	(Get FASTA)	NCBI Sequence Viewer
	XP_038936922	(Get FASTA)	NCBI Sequence Viewer
	XP_038936925	(Get FASTA)	NCBI Sequence Viewer
	XP_038936926	(Get FASTA)	NCBI Sequence Viewer
	XP_038936929	(Get FASTA)	NCBI Sequence Viewer
	XP_038936932	(Get FASTA)	NCBI Sequence Viewer
	XP_038936937	(Get FASTA)	NCBI Sequence Viewer
	XP_038936942	(Get FASTA)	NCBI Sequence Viewer
	XP_038936946	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH78690	(Get FASTA)	NCBI Sequence Viewer
	AAH81693	(Get FASTA)	NCBI Sequence Viewer
	AAL67569	(Get FASTA)	NCBI Sequence Viewer
	AAP37281	(Get FASTA)	NCBI Sequence Viewer
	EDM13135	(Get FASTA)	NCBI Sequence Viewer
	EDM13136	(Get FASTA)	NCBI Sequence Viewer
	Q7TSX5	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_852051 ⟸ NM_181386

- UniProtKB:

Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MLSASTMKEVVYWSPKKVADWLLENAMPEYCEPLGHFTGQDLINLTQEDFTKPPLCRVSSDNGQ
RLLDMIETLKMEHHIEAHKNGHANGHLSIGVDIPNPDGSFSIKIKPNGMPNGFRKEMIKIPMPE
PERSQYPMEWGKTLLAFLYALSCFVLTTVMISVVHERVPPKEVQPPLPDTFFDHFNRVQWAFSI
CEINGMILVGLWLFQWLLLKYKSIISRRFFCIVGTLYLYRCITMYVTTLPVPGMHFNCSPKLFG
DWEAQVRRIMKLIAGGGLSITGSHNMCGDYLYSGHTVMLTLTYLFIKEYSPRRLWWYHWICWLL
SVVGIFCILLAHDHYTVDVVVAYYITTRLFWWYHTMANQQVLKEASQMNLLARVWWYRPFQYFE
KNVQGIVPRSYHWPLPWPVVHLSRQVKYSRLVNDT

hide sequence

RefSeq Acc Id:

ENSRNOP00000070714 ⟸ ENSRNOT00000079227

RefSeq Acc Id:

ENSRNOP00000075286 ⟸ ENSRNOT00000087588

RefSeq Acc Id:

ENSRNOP00000075395 ⟸ ENSRNOT00000079942

RefSeq Acc Id:

ENSRNOP00000051643 ⟸ ENSRNOT00000054761

RefSeq Acc Id:	XP_038936925 ⟸ XM_039080997
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936909 ⟸ XM_039080981
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936922 ⟸ XM_039080994
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936911 ⟸ XM_039080983
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936916 ⟸ XM_039080988
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936926 ⟸ XM_039080998
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936929 ⟸ XM_039081001
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936932 ⟸ XM_039081004
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936937 ⟸ XM_039081009
- Peptide Label:	isoform X1
- UniProtKB:	Q7TSX5 (UniProtKB/Swiss-Prot), A6I104 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936942 ⟸ XM_039081014
- Peptide Label:	isoform X2
- UniProtKB:	A0A0G2JYM5 (UniProtKB/TrEMBL), A6I105 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038936946 ⟸ XM_039081018
- Peptide Label:	isoform X3
- UniProtKB:	A0A0G2JYM5 (UniProtKB/TrEMBL), A6I105 (UniProtKB/TrEMBL)

Protein Domains

SAM

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q7TSX5-F1-model_v2	AlphaFold	Q7TSX5	1-419	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:727912	AgrOrtholog
BioCyc Gene	G2FUF-55924	BioCyc
Ensembl Genes	ENSRNOG00000012536	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000051643	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000070714.2	UniProtKB/TrEMBL
	ENSRNOP00000075395.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000054761	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000079227.2	UniProtKB/TrEMBL
	ENSRNOT00000079942.2	UniProtKB/TrEMBL
Gene3D-CATH	1.10.150.50	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7113038	IMAGE-MGC_LOAD
	IMAGE:7132545	IMAGE-MGC_LOAD
InterPro	SAM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SAM/pointed_sf	UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
	Sphingomyelin_synth-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Sphingomyelin_synth-like_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:353229	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:93062	IMAGE-MGC_LOAD
	MGC:93063	IMAGE-MGC_LOAD
NCBI Gene	353229	ENTREZGENE
PANTHER	PHOSPHATIDYLCHOLINE:CERAMIDE CHOLINEPHOSPHOTRANSFERASE 1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR21290	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	PAP2_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Sgms1	PhenoGen
PROSITE	SAM_DOMAIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SAM_homology	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A0G2JYM5	ENTREZGENE, UniProtKB/TrEMBL
	A6I104	ENTREZGENE, UniProtKB/TrEMBL
	A6I105	ENTREZGENE, UniProtKB/TrEMBL
	Q6AZ82_RAT	UniProtKB/TrEMBL
	Q7TSX5	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-04	Sgms1	sphingomyelin synthase 1	Tmem23	transmembrane protein 23	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-07-08	Tmem23	transmembrane protein 23	Mob	mob protein	Symbol and Name updated	1299863	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_process	interacts with TNF-alpha to promote lung inflammation	1302423

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 Annotations - SMPDB

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)