Smg9 (SMG9 nonsense mediated mRNA decay factor)

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Gene: Smg9 (SMG9 nonsense mediated mRNA decay factor) Mus musculus

Analyze

Symbol:

Smg9

Name:

SMG9 nonsense mediated mRNA decay factor

RGD ID:

1320474

MGI Page

MGI

Description:

Predicted to enable identical protein binding activity. Involved in brain development; eye development; and heart development. Acts upstream of or within in utero embryonic development. Orthologous to human SMG9 (SMG9 nonsense mediated mRNA decay factor).

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

1500002O20Rik; AI429693; N2809; N28092; nonsense-mediated mRNA decay factor SMG9; protein smg-9 homolog; smg-9 homolog, nonsense mediated mRNA decay factor; smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)

RGD Orthologs

Human

Rat

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

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):	SMG9 (SMG9 nonsense mediated mRNA decay factor)	HGNC	EggNOG, Ensembl, HGNC, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Rattus norvegicus (Norway rat):	Smg9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Smg9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SMG9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SMG9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Smg9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SMG9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SMG9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Smg9 (SMG9 nonsense mediated mRNA decay factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Rattus norvegicus (Norway rat):	Smg9 (SMG9 nonsense mediated mRNA decay factor)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	SMG9 (SMG9 nonsense mediated mRNA decay factor)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	smg9 (SMG9 nonsense mediated mRNA decay factor)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid\|ZFIN)
Caenorhabditis elegans (roundworm):	smg-9	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	CG3857	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	smg9	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCm39 - Mouse Genome Assembly GRCm39

Position:

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	24,099,106 - 24,122,197 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	24,099,044 - 24,122,203 (+)	Ensembl		GRCm39 Ensembl
GRCm38	7	24,397,517 - 24,422,777 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	24,399,619 - 24,422,778 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	25,184,647 - 25,207,796 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	24,108,388 - 24,131,537 (+)	NCBI		MGSCv36	mm8
Celera	7	19,024,019 - 19,047,134 (+)	NCBI		Celera
Cytogenetic Map	7	A3	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autism spectrum disorder (ISO)

Developmental Disabilities (ISO)

ethylmalonic encephalopathy (ISO)

genetic disease (ISO)

HEART AND BRAIN MALFORMATION SYNDROME (ISO)

hepatocellular carcinoma (ISO)

NEURODEVELOPMENTAL DISORDER WITH INTENTION TREMOR, PYRAMIDAL SIGNS, DYSPRAXIA, AND OCULAR ANOMALIES (ISO)

Neurodevelopmental Disorders (ISO)

schizophrenia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (EXP)

1,2-dimethylhydrazine (EXP)

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

4,4'-sulfonyldiphenol (ISO)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bisphenol A (ISO)

caffeine (ISO)

cisplatin (ISO)

coumarin (ISO)

doxorubicin (ISO)

endosulfan (ISO)

folic acid (EXP)

fulvestrant (ISO)

gentamycin (ISO)

leflunomide (ISO)

methyl methanesulfonate (ISO)

methylparaben (ISO)

N-methyl-4-phenylpyridinium (ISO)

paracetamol (ISO)

paraquat (ISO)

perfluorooctane-1-sulfonic acid (EXP)

quercetin (ISO)

sodium arsenite (ISO)

sodium fluoride (EXP)

titanium dioxide (EXP)

trichloroethene (ISO)

trichostatin A (ISO)

triptonide (EXP)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

brain development (IMP)

eye development (IMP)

heart development (IMP)

in utero embryonic development (IMP)

nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (IBA,ISO)

Molecular Function

identical protein binding (ISO)

protein binding (ISO)

Phenotype Annotations Click to see Annotation Detail View

Mammalian Phenotype

abnormal atrioventricular cushion morphology (IEA)

abnormal behavior (IEA)

abnormal cervical rib (IEA)

abnormal ductus venosus valve morphology (IEA)

abnormal embryo size (IEA)

abnormal endolymphatic duct morphology (IEA)

abnormal eye muscle morphology (IEA)

abnormal heart position or orientation (IEA)

abnormal hypoglossal nerve topology (IEA)

abnormal inferior vena cava morphology (IEA)

abnormal inferior vena cava valve morphology (IEA)

abnormal interatrial septum morphology (IEA)

abnormal lens morphology (IEA)

abnormal lens topology (IEA)

abnormal middle ear ossicle morphology (IEA)

abnormal nasal cavity morphology (IEA)

abnormal neurohypophysis morphology (IEA)

abnormal optic chiasm morphology (IEA)

abnormal optic cup morphology (IEA)

abnormal pineal gland morphology (IEA)

abnormal placenta morphology (IAGP)

abnormal vein morphology (IEA)

absent connection between subcutaneous lymph vessels and lymph sac (IEA)

absent ductus venosus valve (IEA)

absent kidney (IEA)

absent optic chiasm (IEA)

absent segment of posterior cerebral artery (IEA)

absent superior cervical ganglion (IEA)

anophthalmia (IEA)

aorta coarctation (IEA)

aphakia (IEA)

atrioventricular septal defect (IAGP)

atrium hypoplasia (IEA)

basisphenoid bone foramen (IEA)

blood in lymph vessels (IEA)

coloboma (IEA)

decreased circulating glucose level (IEA)

decreased fetal size (IAGP)

decreased hindbrain size (IAGP)

decreased mean corpuscular hemoglobin concentration (IEA)

decreased midbrain size (IAGP)

decreased thigmotaxis (IEA)

dilated liver sinusoidal space (IEA)

double outlet right ventricle (IEA)

double ureter (IEA)

duplication of ductus venosus (IEA)

edema (IAGP)

exencephaly (IAGP)

fetal growth retardation (IAGP)

fusion of vertebral bodies (IEA)

hemorrhage (IAGP)

heterochrony (IEA)

hyperactivity (IEA)

interrupted aortic arch, type b (IEA)

left atrium hypoplasia (IEA)

lethality throughout fetal growth and development, incomplete penetrance (IAGP)

liver cyst (IEA)

lordosis (IEA)

microphthalmia (IAGP)

muscular ventricular septal defect (IEA)

perimembraneous ventricular septal defect (IEA)

persistent right 6th pharyngeal arch artery (IEA)

persistent right dorsal aorta (IEA)

persistent trigeminal artery (IEA)

polydactyly (IEA)

postnatal lethality, complete penetrance (IAGP)

preaxial polydactyly (IAGP)

preweaning lethality, complete penetrance (IAGP)

reduced sympathetic cervical ganglion size (IEA)

small placenta (IAGP)

small superior cervical ganglion (IEA)

subcutaneous edema (IEA)

thin myocardium (IAGP)

thoracoschisis (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	SMG9 Serves as an Oncogene to Promote the Tumor Progression via EMT and Wnt/β-Catenin Signaling Pathway in Hepatocellular Carcinoma.	Jin X, etal., Front Pharmacol. 2021 Aug 12;12:701454. doi: 10.3389/fphar.2021.701454. eCollection 2021.
2.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:8889548	PMID:10349636	PMID:11042159	PMID:11076861	PMID:11217851	PMID:12466851	PMID:12477932	PMID:14610273	PMID:15782199	PMID:16141072	PMID:16141073	PMID:18799693
PMID:21267068	PMID:21677750	PMID:21873635	PMID:27018474	PMID:27996060	PMID:29539633	PMID:32968282	PMID:33473114	PMID:36859534

Genomics

Comparative Map Data

Smg9
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	24,099,106 - 24,122,197 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	24,099,044 - 24,122,203 (+)	Ensembl		GRCm39 Ensembl
GRCm38	7	24,397,517 - 24,422,777 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	24,399,619 - 24,422,778 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	25,184,647 - 25,207,796 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	24,108,388 - 24,131,537 (+)	NCBI		MGSCv36	mm8
Celera	7	19,024,019 - 19,047,134 (+)	NCBI		Celera
Cytogenetic Map	7	A3	NCBI

SMG9
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	19	43,727,983 - 43,754,962 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	19	43,727,983 - 43,754,962 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	19	44,232,135 - 44,259,114 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	48,927,141 - 48,950,982 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	19	41,038,878 - 41,062,719 (-)	NCBI		Celera
Cytogenetic Map	19	q13.31	NCBI
HuRef	19	40,667,508 - 40,691,349 (-)	NCBI		HuRef
CHM1_1	19	44,237,404 - 44,261,246 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	19	46,550,715 - 46,577,698 (-)	NCBI		T2T-CHM13v2.0

Smg9
(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	79,988,540 - 80,011,262 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	79,988,612 - 80,011,254 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	85,382,535 - 85,404,812 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	1	93,932,398 - 93,954,740 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	1	87,138,346 - 87,160,623 (+)	NCBI	Rnor_WKY
Rnor_6.0	1	81,259,450 - 81,282,893 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	81,260,548 - 81,282,887 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	82,522,701 - 82,545,409 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	79,643,483 - 79,665,871 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	79,721,593 - 79,743,981 (+)	NCBI
Celera	1	74,443,398 - 74,465,698 (+)	NCBI		Celera
Cytogenetic Map	1	q21	NCBI

Smg9
(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_004955555	1,459,451 - 1,481,411 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955555	1,463,031 - 1,481,411 (-)	NCBI	ChiLan1.0	ChiLan1.0

SMG9
(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	19	51,766,169 - 51,790,317 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	19	40,679,952 - 40,704,104 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	19	49,285,796 - 49,309,980 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	49,285,796 - 49,309,980 (-)	Ensembl	panpan1.1		panPan2

SMG9
(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	111,416,396 - 111,438,069 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	111,416,624 - 111,435,575 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	110,896,422 - 110,918,120 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	111,989,720 - 112,011,420 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	111,989,712 - 112,008,913 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	111,614,917 - 111,634,006 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	111,248,775 - 111,270,459 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	112,132,811 - 112,154,512 (+)	NCBI		UU_Cfam_GSD_1.0

Smg9
(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	16,561,128 - 16,581,751 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936706	908,867 - 929,305 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936706	908,471 - 929,075 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SMG9
(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	50,551,057 - 50,569,697 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	50,550,743 - 50,569,753 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	46,411,314 - 46,430,619 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SMG9
(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	37,253,023 - 37,277,536 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	6	37,250,791 - 37,277,557 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666073	16,797,161 - 16,821,699 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Smg9
(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_004624907	1,237,451 - 1,255,586 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624907	1,237,658 - 1,255,589 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Smg9
986 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	1480
Count of miRNA genes:	549
Interacting mature miRNAs:	686
Transcripts:	ENSMUST00000002280, ENSMUST00000108434, ENSMUST00000123188, ENSMUST00000139481, ENSMUST00000146381, ENSMUST00000146686, ENSMUST00000148288
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 (GRCm39)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1301572	Sluc30_m	susceptibility to lung cancer 30 (mouse)			Not determined		7	2431696	36431844	Mouse
1301115	Lrdm1_m	lymphoproliferation (Fas) renal disease modifier 1 (mouse)			Not determined		7	3352048	24879418	Mouse
1300722	Sle3_m	systemic lupus erythmatosus susceptibility 3 (mouse)			Not determined		7	3511728	87142720	Mouse
38501068	Tip1_m	tuberculosis immunophenotype 1, spleen CFU (mouse)					7	3602999	72549748	Mouse
25314307	Mlh1fc2_m	MLH1 foci count 2 (mouse)					7	6502999	133501729	Mouse
12792978	Fbmd3_m	femoral bone mineral density 3, females only (mouse)					7	7050288	142367832	Mouse
1357699	Nhdlq6_m	non-HDL QTL 6 (mouse)			Not determined		7	9988867	43988984	Mouse
1558893	Spir1_m	Streptococcus pneumoniae infection resistance 1 (mouse)			Not determined		7	10305798	44305936	Mouse
10449139	Eosn1_m	eosinophil differential 1 (mouse)					7	12480877	46480877	Mouse
10449158	Eosn3_m	eosinophil differential 3 (mouse)					7	12480877	46480877	Mouse
4141566	Femwf8_m	femur work to failure 8 (mouse)			Not determined			13032485	47032621	Mouse
11522751	Cocia17_m	cocaine-induced activity, QTL 17 (mouse)					7	13135204	47135204	Mouse
25314314	Sccor1_m	synaptonemal complex length to mean MLH1 count ratio 1 (mouse)					7	13333925	47349748	Mouse
1559016	Drsi_m	DCC-related Spp1 induction (mouse)			Not determined		7	16637293	49159331	Mouse
1301041	Prnr2_m	prion resistance 2 (mouse)			Not determined		7	18728794	39674033	Mouse
10412199	Sst2_m	susceptibility to tuberculosis 2 (mouse)			Not determined		7	18728794	119485380	Mouse
1301158	Eae4_m	susceptibility to experimental allergic encephalomyelitis 4 (mouse)			Not determined		7	19147398	141919804	Mouse
1301622	Eae12_m	susceptibility to experimental allergic encephalomyelitis 12 (mouse)			Not determined		7	19280015	53280104	Mouse
1301052	Bhr6_m	bronchial hyperresponsiveness 6 (mouse)			Not determined		7	19842250	53842367	Mouse
12904742	Litsq2_m	litter size QTL 2 (mouse)					7	22673887	56674033	Mouse
1301709	Bdt4_m	bone density traits 4 (mouse)			Not determined		7	22888572	56888716	Mouse
11354952	Pdcc1_m	plasmacytoid dentritic cell compartment 1 (mouse)					7	23066531	57066531	Mouse

Markers in Region

AI429693

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	7	24,422,556 - 24,422,659	UniSTS	GRCm38
MGSCv37	7	25,207,575 - 25,207,678	UniSTS	GRCm37
Celera	7	19,046,913 - 19,047,016	UniSTS
Cytogenetic Map	7	A3	UniSTS
Whitehead/MRC_RH	7	306.8	UniSTS

RH125045

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	7	24,422,650 - 24,422,753	UniSTS	GRCm38
MGSCv37	7	25,207,669 - 25,207,772	UniSTS	GRCm37
Celera	7	19,047,007 - 19,047,110	UniSTS
Cytogenetic Map	7	A3	UniSTS

D7Bwg1348e

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	7	24,422,604 - 24,422,768	UniSTS	GRCm38
MGSCv37	7	25,207,623 - 25,207,787	UniSTS	GRCm37
Celera	7	19,046,961 - 19,047,125	UniSTS
Cytogenetic Map	7	A3	UniSTS
cM Map	7	5.5	UniSTS
cM Map	7		UniSTS

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001418953	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001418954	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_028047	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NR_184862	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC159140	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK005126	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK039368	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK141576	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK161454	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK169651	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK194093	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC034211	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH466593	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSMUST00000002280 ⟹ ENSMUSP00000002280

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	7	24,099,044 - 24,122,203 (+)	Ensembl
GRCm38.p6 Ensembl	7	24,399,619 - 24,422,778 (+)	Ensembl

RefSeq Acc Id:

ENSMUST00000108434 ⟹ ENSMUSP00000104073

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	7	24,099,346 - 24,106,988 (+)	Ensembl
GRCm38.p6 Ensembl	7	24,399,921 - 24,407,563 (+)	Ensembl

RefSeq Acc Id:

ENSMUST00000123188 ⟹ ENSMUSP00000114943

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	7	24,114,400 - 24,120,355 (+)	Ensembl
GRCm38.p6 Ensembl	7	24,414,975 - 24,420,930 (+)	Ensembl

RefSeq Acc Id:

ENSMUST00000139481

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	7	24,099,149 - 24,105,276 (+)	Ensembl
GRCm38.p6 Ensembl	7	24,399,724 - 24,405,851 (+)	Ensembl

RefSeq Acc Id:

ENSMUST00000146381

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	7	24,099,044 - 24,107,698 (+)	Ensembl
GRCm38.p6 Ensembl	7	24,399,619 - 24,408,273 (+)	Ensembl

RefSeq Acc Id:

ENSMUST00000146686

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	7	24,119,620 - 24,122,064 (+)	Ensembl
GRCm38.p6 Ensembl	7	24,420,195 - 24,422,639 (+)	Ensembl

RefSeq Acc Id:

ENSMUST00000148288

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	7	24,114,158 - 24,120,355 (+)	Ensembl
GRCm38.p6 Ensembl	7	24,414,733 - 24,420,930 (+)	Ensembl

RefSeq Acc Id:

NM_001418953 ⟹ NP_001405882

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	7	24,099,106 - 24,122,197 (+)	NCBI

RefSeq Acc Id:

NM_001418954 ⟹ NP_001405883

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	7	24,099,419 - 24,122,197 (+)	NCBI

RefSeq Acc Id:

NM_028047 ⟹ NP_082323

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	7	24,099,106 - 24,122,197 (+)	NCBI
GRCm38	7	24,399,628 - 24,422,777 (+)	NCBI
MGSCv37	7	25,184,647 - 25,207,796 (+)	RGD
Celera	7	19,024,019 - 19,047,134 (+)	RGD
cM Map	7		ENTREZGENE

Sequence:

show sequence

GCGCCGAGCTAGCAGCGCAGGCCGTGACTCGTTGGGCTGCGTACTGTGGCTTCCTCTTCTTCCT
CCTCTGGGAGCTTCCGGGACGCCAAGGCCTGTTCCGGAATAGCCGGCACCCGTTTTCTCGGCCT
CTCTCATTCTCTGGCTTGTGACCTTCCGGCACCATTTACACGGCAGGTGGCTGTGGAGGACCTT
CCCCGCCCACGCTGCACTCCCGTCACTCAGAGCGCGCGCTGCGACCCAGGAACTAATCAGCAGC
TGCCCTAGGTGACCATGTCGGAGTCTGGGCACAGTCAGCCTGGGCTCTACGGGATAGAGCGGCG
GCGGCGGTGGAAGGAGCCAGGCTCCAGTGGCCCCCAGAACCTTTCTGGACCTGGTGGTCGGGAG
AGAGACTACATTGCCCCCTGGGAAAGAGAGAGACGGGATGGCAGCGAAGACCCCAGCACTAACG
TCATGCAGAAAACCCCCATCATCCTCTCAAAGCCCCCAGCTGAGCGGTCAAAGCAGCCGCCACC
TAGTACAGCGCCAGCTGCACCGCCAGCCCCGGCCCCACTGGAGAAACCCATTGTGCTCATGAAG
CCACGTGAGGAGGGGAAGGGGCCTGTGGCTGGAACAGGGGCTTCCACCCCTGAAGGTACTGCGC
CCCCGCCCCCCACGGCCCCTGCACCACCCAAGGGAGAGAAGGAGGGGCAGAGACCCACACAGCC
TGTGTACCAGATTCAAAACCGGGGCATGGGCACTGCTGCCCCAACTGCCATGGACCCTGTGGTG
GGCCAGGCTAAGCTCCTGCCCCCAGAGCGCATGAAGCACAGCATCAAGCTGGTAGACGACCAGA
TGAACTGGTGTGACAGTGCCATTGAGTACCTGCTGGATCAGACGGACGTGTTAGTGGTCGGTGT
CTTAGGCCTCCAGGGGACAGGCAAGTCCATGGTCATGTCACTGCTGTCTGCAAACACTCCAGAG
GAAGACCAGAGAGCGTATGTCTTCCGGGCTCAGAGTGCAGAGATGAAGGAACGAGGGGGCAACC
AGACCAGTGGCATTGACTTCTTCATTACCCAAGAGCGGATTGTCTTCCTAGACACACAGCCCAT
CCTCAGCCCATCCATCTTGGACCACCTCATCAATAACGACCGCAAACTGCCTCCAGAGTATAAC
CTCCCTCACACCTATGTGGAAATGCAGTCCCTGCAGATAGCTGCCTTCCTCTTCACCGTGTGCC
ACGTGGTGATCGTCGTGCAGGATTGGTTCACGGACCTCAGTCTGTACAGGTTCCTGCAGACAGC
AGAGATGGTGAAGCCATCCACACCGTCCCCCAGCCACGAGTCTAGCAGCTCTGCAGGCTCAGAC
GAGGGTACCGAGTACTACCCCCACCTGGTCTTCTTGCAGAACAAGGCACGTAGGGAGGACTTCT
GTCCCCGGAAGCTACGTCAGATGCACCTGATGATTGACCAGCTCATGGCACACTCCCACCTGCG
CTACAAGGGGACGCTGTCCATGCTACAGTGCAACGTCTTCCCAGGGCTGCCGCCCGACTTCCTG
GATGCTGAGGTCAACTTGTTCCTGGTGCCCTTCATGGACAGTGAAGCTGAGAACGAGAACCCAC
CTCGAGCAGGACCTGGCTCCAGCCCCCTCTTTTCCCTCCTGCCTGGGTACCGAGGTCACCCCAG
CTTCCAGTCCTTGGTCAGCAAGCTCCGCAGCCAGGTGATGTCTATGGCTCGGCCACAGCTGTCA
CACACGATCCTCACTGAGAAGAATTGGTTCCACTACGCTGCCCGCATCTGGGATGGGGTGAAGA
AGTCCTCAGCCCTGGCAGAGTACAGCCGCCTGCTGGCCTGATGCCGAGGGAGCAGCAGCATGCA
GGGAACTGCCCTGTCCTGTGGGCTGTCCTGTGGACAGTGAGGGCACAGCCACCCTCCAGCAAGG
GAGGAGAGTGACAGAGGCCTGGCAGAGGGATCGTGGCTTCCCGCTGAGAGACGTGAGGTGTCTG
AGGCCAGCCCCTCCCTCAAATGGGGGGCTGCTCACAGGGTGACTAAGAGATCCCACCCCGAGCC
TGGTATGAGCAGCCTTTCCCAAATCTCCATAGAGACCAGCAGCAGCAGGAGGAGGAGTCAATGT
GCCAGGAAGCCTGACCCCACTGAGTCTGACTCCAGGCCTTCCGTGGGAAACGGGGTTGGGGCTG
GAGAGCTTTTCAAGACGAGGGTCTGATGGTTCGAATAAATGTGGTCACAGAGCCTG

hide sequence

RefSeq Acc Id:

NR_184862

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	7	24,099,106 - 24,122,197 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001405882	(Get FASTA)	NCBI Sequence Viewer
	NP_001405883	(Get FASTA)	NCBI Sequence Viewer
	NP_082323	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH34211	(Get FASTA)	NCBI Sequence Viewer
	BAB23829	(Get FASTA)	NCBI Sequence Viewer
	BAC30328	(Get FASTA)	NCBI Sequence Viewer
	BAE24745	(Get FASTA)	NCBI Sequence Viewer
	BAE36406	(Get FASTA)	NCBI Sequence Viewer
	BAE41275	(Get FASTA)	NCBI Sequence Viewer
	EDL24339	(Get FASTA)	NCBI Sequence Viewer
	Q9DB90	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_082323 ⟸ NM_028047
- Peptide Label:	isoform 1
- UniProtKB:	Q8BYJ3 (UniProtKB/Swiss-Prot), Q9DB90 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MSESGHSQPGLYGIERRRRWKEPGSSGPQNLSGPGGRERDYIAPWERERRDGSEDPSTNVMQKT PIILSKPPAERSKQPPPSTAPAAPPAPAPLEKPIVLMKPREEGKGPVAGTGASTPEGTAPPPPT APAPPKGEKEGQRPTQPVYQIQNRGMGTAAPTAMDPVVGQAKLLPPERMKHSIKLVDDQMNWCD SAIEYLLDQTDVLVVGVLGLQGTGKSMVMSLLSANTPEEDQRAYVFRAQSAEMKERGGNQTSGI DFFITQERIVFLDTQPILSPSILDHLINNDRKLPPEYNLPHTYVEMQSLQIAAFLFTVCHVVIV VQDWFTDLSLYRFLQTAEMVKPSTPSPSHESSSSAGSDEGTEYYPHLVFLQNKARREDFCPRKL RQMHLMIDQLMAHSHLRYKGTLSMLQCNVFPGLPPDFLDAEVNLFLVPFMDSEAENENPPRAGP GSSPLFSLLPGYRGHPSFQSLVSKLRSQVMSMARPQLSHTILTEKNWFHYAARIWDGVKKSSAL AEYSRLLA hide sequence

RefSeq Acc Id:

ENSMUSP00000104073 ⟸ ENSMUST00000108434

RefSeq Acc Id:

ENSMUSP00000002280 ⟸ ENSMUST00000002280

RefSeq Acc Id:

ENSMUSP00000114943 ⟸ ENSMUST00000123188

RefSeq Acc Id:	NP_001405882 ⟸ NM_001418953
- Peptide Label:	isoform 2

RefSeq Acc Id:	NP_001405883 ⟸ NM_001418954
- Peptide Label:	isoform 1

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q9DB90-F1-model_v2	AlphaFold	Q9DB90	1-520	view protein structure

Promoters

RGD ID:

6892178

Promoter ID:

EPDNEW_M9540

Type:

initiation region

Name:

Smg9_1

Description:

Mus musculus smg-9 homolog, nonsense mediated mRNA decay factor, mRNA.

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38	7	24,399,681 - 24,399,741	EPDNEW

RGD ID:

6840454

Promoter ID:

MM_KWN:49364

Type:

CpG-Island

SO ACC ID:

SO:0000170

Source:

MPROMDB

Tissues & Cell Lines:

3T3L1_Day0, 3T3L1_Day1, 3T3L1_Day2, 3T3L1_Day3, 3T3L1_Day4, 3T3L1_Day6, BoneMarrow_0Hour, BoneMarrow_2Hour, BoneMarrow_4Hour, Brain, ES_Cell, Kidney, Liver, Lung, MEF_B4, MEF_B6, Spleen

Transcripts:

ENSMUST00000108434, OTTMUST00000053054, OTTMUST00000053055, OTTMUST00000053056

Position:

Mouse Assembly	Chr	Position (strand)	Source
MGSCv36	7	25,184,421 - 25,185,132 (+)	MPROMDB

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	MGI:1919247	AgrOrtholog
Ensembl Genes	ENSMUSG00000002210	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSMUSP00000002280	ENTREZGENE
	ENSMUSP00000002280.5	UniProtKB/Swiss-Prot
	ENSMUSP00000104073.2	UniProtKB/TrEMBL
	ENSMUSP00000114943.2	UniProtKB/TrEMBL
Ensembl Transcript	ENSMUST00000002280	ENTREZGENE
	ENSMUST00000002280.11	UniProtKB/Swiss-Prot
	ENSMUST00000108434.2	UniProtKB/TrEMBL
	ENSMUST00000123188.2	UniProtKB/TrEMBL
Gene3D-CATH	3.40.50.300	UniProtKB/Swiss-Prot
InterPro	P-loop_NTPase	UniProtKB/Swiss-Prot
	Smg8/Smg9	UniProtKB/Swiss-Prot
	SMG9	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	mmu:71997	UniProtKB/Swiss-Prot
MGD	MGI:1919247	ENTREZGENE
NCBI Gene	71997	ENTREZGENE
PANTHER	PROTEIN SMG9	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR14270	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Smg8_Smg9	UniProtKB/Swiss-Prot
PhenoGen	Smg9	PhenoGen
UniProt	D3Z719_MOUSE	UniProtKB/TrEMBL
	F6YIT4_MOUSE	UniProtKB/TrEMBL
	Q8BYJ3	ENTREZGENE
	Q9DB90	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	Q3TTB9	UniProtKB/Swiss-Prot
	Q8BYJ3	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-05-11	Smg9	SMG9 nonsense mediated mRNA decay factor	Smg9	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	Symbol and/or name change	5135510	APPROVED
2012-09-25	Smg9	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	1500002O20Rik	RIKEN cDNA 1500002O20 gene	Symbol and/or name change	5135510	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)

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