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Gene: Smu1 (SMU1, DNA replication regulator and spliceosomal factor) Rattus norvegicus

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Symbol:

Smu1

Name:

SMU1, DNA replication regulator and spliceosomal factor

RGD ID:

620694

Description:

Predicted to be involved in mRNA splicing, via spliceosome and regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in nuclear speck. Predicted to be part of U2-type precatalytic spliceosome. Orthologous to human SMU1 (SMU1 DNA replication regulator and spliceosomal factor); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; ammonium chloride.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

brain-enriched WD repeat-containing protein; brain-enriched WD-repeat protein; Bwd; DNA replication regulator and spliceosomal factor; homolog of C. elegans smu-1; Smu-1; smu-1 suppressor of mec-8 and unc-52 homolog; smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans); smu-1 suppressor of mec-8 and unc-52 protein homolog; suppressor of Mec and Unc defects 1 homolog; suppressor of Mec and Unc defects 1 homolog (C. elegans); WD40 repeat-containing protein SMU1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	60,652,680 - 60,671,251 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	60,652,680 - 60,671,251 (-)	Ensembl				GRCr8
mRatBN7.2	5	55,856,691 - 55,875,262 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	55,856,246 - 55,875,300 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	57,822,380 - 57,840,946 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	59,641,542 - 59,660,108 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	59,635,611 - 59,654,276 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	57,042,301 - 57,061,379 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	57,042,705 - 57,061,365 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	61,576,122 - 61,595,202 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	58,115,070 - 58,133,640 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	54,468,882 - 54,487,453 (-)	NCBI		Celera
RGSC_v3.1	5	58,115,248 - 58,133,819 (-)	NCBI
Cytogenetic Map	5	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

3,4-methylenedioxymethamphetamine (ISO)

4,4'-sulfonyldiphenol (ISO)

actinomycin D (ISO)

ammonium chloride (EXP)

benzatropine (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol AF (ISO)

cadmium atom (ISO)

cadmium dichloride (EXP,ISO)

copper atom (ISO)

copper(0) (ISO)

crocidolite asbestos (ISO)

Cuprizon (ISO)

cyclosporin A (ISO)

Dibutyl phosphate (ISO)

diethylstilbestrol (ISO)

ethanol (ISO)

finasteride (EXP)

flutamide (EXP)

folic acid (ISO)

gentamycin (EXP)

irinotecan (ISO)

ivermectin (ISO)

lead(0) (ISO)

methidathion (ISO)

N-methyl-4-phenylpyridinium (ISO)

nitrates (ISO)

Nutlin-3 (ISO)

paracetamol (EXP)

resveratrol (ISO)

silver atom (ISO)

silver(0) (ISO)

sulindac (EXP)

theophylline (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

triptonide (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

mRNA processing (IEA)

mRNA splicing, via spliceosome (IEA,ISO,ISS)

regulation of alternative mRNA splicing, via spliceosome (ISS)

RNA splicing (IBA,IEA)

Cellular Component

cytoplasm (IEA)

nuclear speck (IEA,ISS)

nucleoplasm (IEA)

nucleus (IEA,ISO,ISS)

precatalytic spliceosome (IBA)

spliceosomal complex (IEA)

U2-type precatalytic spliceosome (IEA,ISO,ISS)

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Cloning and molecular characterization of a novel gene encoding a WD-repeat protein expressed in restricted areas of adult rat brain.	Di Benedetto AJ, etal., Gene 2001 Jun 13;271(1):21-31.
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.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
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:28781166

Genomics

Comparative Map Data

Smu1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	60,652,680 - 60,671,251 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	60,652,680 - 60,671,251 (-)	Ensembl				GRCr8
mRatBN7.2	5	55,856,691 - 55,875,262 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	55,856,246 - 55,875,300 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	57,822,380 - 57,840,946 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	59,641,542 - 59,660,108 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	59,635,611 - 59,654,276 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	57,042,301 - 57,061,379 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	57,042,705 - 57,061,365 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	61,576,122 - 61,595,202 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	58,115,070 - 58,133,640 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	54,468,882 - 54,487,453 (-)	NCBI		Celera
RGSC_v3.1	5	58,115,248 - 58,133,819 (-)	NCBI
Cytogenetic Map	5	q22	NCBI

SMU1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	33,041,765 - 33,076,674 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	33,041,765 - 33,076,694 (-)	Ensembl			hg38	GRCh38
GRCh37	9	33,041,763 - 33,076,672 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	33,031,850 - 33,066,714 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	9	33,037,168 - 33,066,644	NCBI
Celera	9	32,973,152 - 33,007,723 (-)	NCBI		Celera
Cytogenetic Map	9	p21.1	NCBI
HuRef	9	33,000,244 - 33,034,724 (-)	NCBI		HuRef
CHM1_1	9	33,041,616 - 33,076,467 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	33,058,326 - 33,097,983 (-)	NCBI		T2T-CHM13v2.0

Smu1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	40,735,649 - 40,757,885 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	40,736,542 - 40,757,923 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	4	40,735,649 - 40,757,885 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	40,736,542 - 40,757,923 (-)	Ensembl			mm10	GRCm38
MGSCv37	4	40,682,682 - 40,704,918 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	4	40,925,789 - 40,946,542 (-)	NCBI		MGSCv36	mm8
Celera	4	40,395,909 - 40,418,582 (-)	NCBI		Celera
Cytogenetic Map	4	A5	NCBI
cM Map	4	20.46	NCBI

Smu1
(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_004955472	2,570,340 - 2,600,146 (+)	Ensembl
ChiLan1.0	NW_004955472	2,570,248 - 2,600,551 (+)	NCBI	ChiLan1.0	ChiLan1.0

SMU1
(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	11	91,529,456 - 91,560,515 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	91,535,344 - 91,566,456 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	32,819,539 - 32,851,273 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	33,627,765 - 33,659,530 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	33,628,027 - 33,659,539 (-)	Ensembl			panPan2	panpan1.1

SMU1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	50,172,679 - 50,195,719 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	11	50,174,153 - 50,195,644 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	48,802,624 - 48,824,195 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	51,114,748 - 51,136,321 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	51,113,275 - 51,136,290 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	49,777,760 - 49,799,378 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	49,644,471 - 49,666,053 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	50,409,655 - 50,431,231 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Smu1
(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_024404947	165,067,775 - 165,091,578 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936524	1,615,129 - 1,639,193 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936524	1,615,299 - 1,639,133 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SMU1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	10	33,399,383 - 33,430,971 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	10	33,399,383 - 33,426,313 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	10	37,653,407 - 37,680,329 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SMU1
(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	12	47,188,919 - 47,214,320 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666038	44,084,954 - 44,118,204 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Smu1
(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_004624736	37,798,167 - 37,826,935 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624736	37,797,710 - 37,826,939 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Smu1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	1	117,479,997 - 117,498,753 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Smu1
104 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	34
Count of miRNA genes:	33
Interacting mature miRNAs:	34
Transcripts:	ENSRNOT00000010464
Prediction methods:	Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1578776	Stresp18	Stress response QTL 18	2.9		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	5	32751649	77751649	Rat
1298067	Scl15	Serum cholesterol level QTL 15	4.8	0.001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	38011670	83011670	Rat
1300115	Hrtrt7	Heart rate QTL 7	2.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	52665372	94894052	Rat
6907115	Mcs29	Mammary carcinoma susceptibility QTL 29			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	38004331	83004331	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	44924861	153890773	Rat
1358353	Srcrtb2	Stress Responsive Cort Basal QTL 2	3.48	0.003	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	23671493	79046465	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	38207390	136631402	Rat
634305	Mamtr1	Mammary tumor resistance QTL 1		0.0001	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	17576633	62576633	Rat
1331801	Rf33	Renal function QTL 33	4.149		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	48523123	134369373	Rat
1578774	Tcas8	Tongue tumor susceptibility QTL 8	3.47		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	15707451	60707451	Rat
1598807	Glom12	Glomerulus QTL 12	2.7		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	5	38011670	83011670	Rat
1302786	Kidm8	Kidney mass QTL 8	28.15		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	38011670	83011670	Rat
1331782	Rf36	Renal function QTL 36	3.296		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	39019942	102105896	Rat
6903292	Stl28	Serum triglyceride level QTL 28	2.6	0.0073	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	5	33311673	78311673	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	51657967	166600247	Rat
1578767	Stresp17	Stress response QTL 17	4.3	0.01	blood aldosterone amount (VT:0005346)	plasma aldosterone level (CMO:0000551)	5	32751649	77751649	Rat
1641922	Alcrsp8	Alcohol response QTL 8			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	5	17486080	62486080	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55124766	172190305	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	39985948	84985948	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	6922282	81330203	Rat
6903306	Scl35	Serum cholesterol QTL 35	2.6	0.0073	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	33311673	78311673	Rat
1576317	Eutr2	Estrogen induced uterine response QTL 2		0.01	uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	39526924	84526924	Rat
1331773	Scl26	Serum cholesterol level QTL 26	3.065		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	48523123	91770353	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	60601597	137492949	Rat
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	10019064	91770353	Rat
61359	Eaex	Experimental allergic encephalomyelitis QTL x	3		nervous system integrity trait (VT:0010566)	post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)	5	60511627	105511627	Rat
8662454	Vetf3	Vascular elastic tissue fragility QTL 3	27.4		artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	5	7065535	74335773	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	36460764	136631402	Rat
1641903	Alcrsp3	Alcohol response QTL 3			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	17486080	62486080	Rat
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	10019064	87027358	Rat
8552954	Pigfal14	Plasma insulin-like growth factor 1 level QTL 14	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	26023211	71023211	Rat
2303577	Gluco47	Glucose level QTL 47	3		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	16520019	61520019	Rat
2316959	Gluco59	Glucose level QTL 59	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	56546393	101546393	Rat
1600358	Mamtr5	Mammary tumor resistance QTL 5			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	23671493	68671493	Rat

Markers in Region

AW556129

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	55,856,380 - 55,856,456 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	57,042,433 - 57,042,508	NCBI	Rnor6.0
Rnor_5.0	5	61,576,254 - 61,576,329	UniSTS	Rnor5.0
RGSC_v3.4	5	58,114,760 - 58,114,835	UniSTS	RGSC3.4
Celera	5	54,468,572 - 54,468,647	UniSTS
Cytogenetic Map	5	q22	UniSTS

RH130392

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	5	60,652,748 - 60,653,647 (+)	Marker Load Pipeline
mRatBN7.2	5	55,856,759 - 55,857,658 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	57,042,812 - 57,043,710	NCBI	Rnor6.0
Rnor_5.0	5	61,576,633 - 61,577,531	UniSTS	Rnor5.0
RGSC_v3.4	5	58,115,139 - 58,116,037	UniSTS	RGSC3.4
Celera	5	54,468,951 - 54,469,849	UniSTS
Cytogenetic Map	5	q22	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	165	91	90	59	92	59	6	356	192	11	144	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_057195	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017593133	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC119348	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY029526	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000010464 ⟹ ENSRNOP00000010463

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	60,652,680 - 60,671,251 (-)	Ensembl
mRatBN7.2 Ensembl	5	55,856,246 - 55,875,300 (-)	Ensembl
Rnor_6.0 Ensembl	5	57,042,705 - 57,061,365 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000105273 ⟹ ENSRNOP00000094346

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	60,652,680 - 60,671,251 (-)	Ensembl
mRatBN7.2 Ensembl	5	55,856,379 - 55,875,293 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000115984 ⟹ ENSRNOP00000078195

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	60,652,680 - 60,670,055 (-)	Ensembl
mRatBN7.2 Ensembl	5	55,856,246 - 55,874,066 (-)	Ensembl

RefSeq Acc Id:

NM_057195 ⟹ NP_476543

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	60,652,680 - 60,671,251 (-)	NCBI
mRatBN7.2	5	55,856,691 - 55,875,262 (-)	NCBI
Rnor_6.0	5	57,042,743 - 57,061,313 (-)	NCBI
Rnor_5.0	5	61,576,122 - 61,595,202 (-)	NCBI
RGSC_v3.4	5	58,115,070 - 58,133,640 (-)	RGD
Celera	5	54,468,882 - 54,487,453 (-)	RGD

Sequence:

show sequence

GGCCTAGACCCGGAGCGTTACCGCTATGTCGATCGAAATCGAGTCTTCCGATGTGATTCGTCTA
ATCATGCAGTACTTGAAGGAGAACAGTTTACATCGGGCATTGGCCACCTTCACGGAGGAAACCA
CTGTCTCTCTGAATACTGTGGATAGCATTGAAAGTTTTGTGGCTGATATTAATAGTGGCCACTG
GGACACTGTTTTACAGGCTATCCAGTCTCTGAAATTGCCAGACAAAACCCTTATTGATCTCTAT
GAACAGGTTGTTTTGGAATTGATAGAGCTTCGTGAACTGGGTGCTGCCAGGTCACTTCTGAGAC
AGACTGACCCCATGATTATGTTAAAGCAAACACAACCAGAGCGATATATTCATCTGGAAAACCT
GCTAGCCAGATCTTACTTTGACCCTCGGGAGGCGTATCCAGATGGAAGCAGCAAAGAGAAAAGG
AGAGCGGCGATTGCCCAGGCTTTGGCTGGGGAGGTCAGCGTGGTGCCGCCTTCCCGTCTCATGG
CGTTGCTGGGACAGGCACTGAAGTGGCAGCAGCACCAGGGATTGCTTCCTCCTGGTATGACCAT
AGATTTGTTTCGAGGCAAGGCAGCTGTCAAAGATGTGGAAGAAGAGAAGTTTCCCACACAGCTG
AGCAGACATATTAAGTTTGGGCAGAAATCCCACGTGGAGTGCGCTCGGTTCTCTCCAGACGGTC
AGTATCTGGTCACCGGCTCTGTTGACGGATTTATTGAGGTGTGGAACTTCACTACTGGGAAAAT
CAGGAAGGATCTTAAGTACCAGGCCCAGGATAACTTCATGATGATGGATGATGCTGTCCTCTGC
ATGTGTTTCAGCAGAGACACTGAAATGTTAGCAACTGGGGCCCAAGACGGAAAGATCAAGGTTT
GGAAGATTCAGAGTGGACAGTGTTTGAGAAGATTTGAAAGGGCACATAGTAAAGGTGTCACCTG
TCTAAGCTTTTCCAAGGACAGCAGTCAGATCCTCAGTGCTTCTTTTGACCAGACAATAAGAATT
CATGGTTTAAAATCTGGAAAAACACTTAAGGAATTTCGAGGCCATTCCTCCTTTGTCAATGAGG
CAACATTTACACAAGATGGGCATTACATTATCAGTGCATCCTCTGATGGCACTGTGAAGATCTG
GAATATGAAGACCACCGAATGTTCAAATACCTTTAAATCCCTGGGCAGTACTGCAGGGACAGAT
ATTACAGTCAATAGTGTAATTCTGCTTCCTAAAAACCCAGAGCATTTTGTTGTGTGCAACCGAT
CGAACACAGTGGTCATCATGAACATGCAGGGGCAGATTGTCAGAAGCTTCAGCTCTGGTAAAAG
AGAGGGTGGTGACTTTGTCTGCTGTGCCCTCTCCCCTCGTGGCGAGTGGATCTACTGTGTTGGG
GAGGACTTTGTGCTCTACTGCTTCAGCACAGTCACTGGCAAGCTGGAGAGAACTCTGACGGTTC
ATGAAAAGGATGTGATCGGAATTGCACACCACCCGCACCAGAACTTGATTGCCACCTACAGTGA
AGATGGACTCCTGAAGCTCTGGAAACCCTAAGTCAGCCTTTACAGTGCAGCCAAGGAGCGTGTA
CTTAAGTGGAGGGCATGGTCATGTATTATTTTTACTTTTTCATGTCTGCGTCCTAGCATAAAAC
TTGTAAATAAGTCAGTAGCTACGGGTTCTTTTAAAAAAGATTTTAATAAACCTCTCTTTACCAT

hide sequence

Protein Sequences


Protein RefSeqs	NP_476543	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAK33013	(Get FASTA)	NCBI Sequence Viewer
	EDL98642	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000094346
GenBank Protein	Q99M63	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_476543 ⟸ NM_057195

- UniProtKB:

Q99M63 (UniProtKB/Swiss-Prot), A0A8I5YCN7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSIEIESSDVIRLIMQYLKENSLHRALATFTEETTVSLNTVDSIESFVADINSGHWDTVLQAIQ
SLKLPDKTLIDLYEQVVLELIELRELGAARSLLRQTDPMIMLKQTQPERYIHLENLLARSYFDP
REAYPDGSSKEKRRAAIAQALAGEVSVVPPSRLMALLGQALKWQQHQGLLPPGMTIDLFRGKAA
VKDVEEEKFPTQLSRHIKFGQKSHVECARFSPDGQYLVTGSVDGFIEVWNFTTGKIRKDLKYQA
QDNFMMMDDAVLCMCFSRDTEMLATGAQDGKIKVWKIQSGQCLRRFERAHSKGVTCLSFSKDSS
QILSASFDQTIRIHGLKSGKTLKEFRGHSSFVNEATFTQDGHYIISASSDGTVKIWNMKTTECS
NTFKSLGSTAGTDITVNSVILLPKNPEHFVVCNRSNTVVIMNMQGQIVRSFSSGKREGGDFVCC
ALSPRGEWIYCVGEDFVLYCFSTVTGKLERTLTVHEKDVIGIAHHPHQNLIATYSEDGLLKLWK
P

hide sequence

Ensembl Acc Id:

ENSRNOP00000010463 ⟸ ENSRNOT00000010464

Ensembl Acc Id:

ENSRNOP00000094346 ⟸ ENSRNOT00000105273

Ensembl Acc Id:

ENSRNOP00000078195 ⟸ ENSRNOT00000115984

Protein Domains

CTLH LisH

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q99M63-F1-model_v2	AlphaFold	Q99M63	1-513	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13693636

Promoter ID:

EPDNEW_R4160

Type:

initiation region

Name:

Smu1_1

Description:

SMU1, DNA replication regulator and spliceosomal factor

SO ACC ID:

SO:0000170

Source:

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

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	57,061,344 - 57,061,404	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620694	AgrOrtholog
BioCyc Gene	G2FUF-41587	BioCyc
Ensembl Genes	ENSRNOG00000007671	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000105273	ENTREZGENE
Gene3D-CATH	2.130.10.10	UniProtKB/Swiss-Prot
InterPro	CTLH_C	UniProtKB/Swiss-Prot
	G-protein_beta_WD-40_rep	UniProtKB/Swiss-Prot
	LisH	UniProtKB/Swiss-Prot
	SMU1	UniProtKB/Swiss-Prot
	TPL_SMU1_LisH-like	UniProtKB/Swiss-Prot
	WD40/YVTN_repeat-like_dom_sf	UniProtKB/Swiss-Prot
	WD40_repeat	UniProtKB/Swiss-Prot
	WD40_repeat_CS	UniProtKB/Swiss-Prot
	WD40_repeat_dom_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:117541	UniProtKB/Swiss-Prot
NCBI Gene	117541	ENTREZGENE
PANTHER	PTHR22848	UniProtKB/Swiss-Prot
Pfam	LisH_TPL	UniProtKB/Swiss-Prot
	WD40	UniProtKB/Swiss-Prot
PhenoGen	Smu1	PhenoGen
PRINTS	GPROTEINBRPT	UniProtKB/Swiss-Prot
PROSITE	CTLH	UniProtKB/Swiss-Prot
	LISH	UniProtKB/Swiss-Prot
	WD_REPEATS_1	UniProtKB/Swiss-Prot
	WD_REPEATS_2	UniProtKB/Swiss-Prot
	WD_REPEATS_REGION	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000007671	RatGTEx
SMART	CTLH	UniProtKB/Swiss-Prot
	LisH	UniProtKB/Swiss-Prot
	WD40	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF50978	UniProtKB/Swiss-Prot
UniProt	A0A8I5YCN7	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6AJD8_RAT	UniProtKB/TrEMBL
	A6IIS2_RAT	UniProtKB/TrEMBL
	G3V702_RAT	UniProtKB/TrEMBL
	Q99M63	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-09-15	Smu1	SMU1, DNA replication regulator and spliceosomal factor	Smu1	DNA replication regulator and spliceosomal factor	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2016-06-03	Smu1	DNA replication regulator and spliceosomal factor	Smu1	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Smu1	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)		suppressor of Mec and Unc defects 1 homolog (C. elegans)	Name updated	1299863	APPROVED
2004-02-11	Smu1	suppressor of Mec and Unc defects 1 homolog (C. elegans)	Smu-1	homolog of C. elegans smu-1	Symbol and Name updated to reflect Human and Mouse nomenclature	625702	APPROVED
2002-08-07	Smu-1	homolog of C. elegans smu-1			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_domains	contains four WD amino acid motifs	724659
gene_expression	highly expressed in the Purkinje and granule neurons of the cerebellum, the pyramidal cells of the hippocampus, and the dentate gyrus	724659
gene_transcript	mRNA 1.8 and 2.2 kb in size; longer one has two RNA instability signals (AUUUA)	724659

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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