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Gene: Smndc1 (survival motor neuron domain containing 1) Rattus norvegicus

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Symbol:

Smndc1

Name:

survival motor neuron domain containing 1

RGD ID:

1309151

Description:

Predicted to enable RNA binding activity. Predicted to be involved in RNA splicing; apoptotic process; and mRNA processing. Predicted to be located in Cajal body; cytoplasm; and nuclear speck. Predicted to be part of spliceosomal complex. Predicted to be active in nucleus. Orthologous to human SMNDC1 (survival motor neuron domain containing 1); PARTICIPATES IN spliceosome pathway; INTERACTS WITH (+)-schisandrin B; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 17alpha-ethynylestradiol.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC287768; MGC112663; survival motor neuron domain-containing protein 1; survival of motor neuron-related-splicing factor 30

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	1	262,395,034 - 262,406,104 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	262,386,590 - 262,405,707 (-)	Ensembl				GRCr8
mRatBN7.2	1	252,389,675 - 252,400,749 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	252,389,673 - 252,401,616 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	260,578,802 - 260,589,853 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	267,284,868 - 267,295,919 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	259,940,504 - 259,951,557 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	274,096,068 - 274,107,138 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	274,096,068 - 274,107,138 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	281,509,724 - 281,520,796 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	1	259,596,813 - 259,607,340 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	248,112,016 - 248,123,086 (-)	NCBI		Celera
RGSC_v3.1	1	259,807,858 - 259,817,787 (-)	NCBI
Cytogenetic Map	1	q55	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

(+)-schisandrin B (EXP)

1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane (EXP,ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP,ISO)

17beta-estradiol (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2,4-dinitrotoluene (EXP)

2-hydroxypropanoic acid (ISO)

3,3',5,5'-tetrabromobisphenol A (EXP)

4-hydroxyphenyl retinamide (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

caffeine (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

coumarin (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

Dibutyl phosphate (ISO)

doxorubicin (ISO)

enzyme inhibitor (ISO)

fenpyroximate (ISO)

folic acid (ISO)

FR900359 (ISO)

gentamycin (EXP)

GSK-J4 (ISO)

ivermectin (ISO)

N,N-diethyl-m-toluamide (EXP)

ozone (ISO)

paracetamol (ISO)

perfluorohexanesulfonic acid (ISO)

permethrin (EXP)

phenobarbital (ISO)

picoxystrobin (ISO)

rac-lactic acid (ISO)

resveratrol (ISO)

rotenone (ISO)

sodium arsenite (ISO)

tert-butyl hydroperoxide (ISO)

tetrachloromethane (EXP,ISO)

thapsigargin (EXP)

thiram (ISO)

titanium dioxide (ISO)

triphenyl phosphate (ISO)

troglitazone (ISO)

trovafloxacin (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

apoptotic process (IEA)

mRNA processing (IEA)

RNA splicing (IEA)

Cellular Component

Cajal body (IEA)

cytoplasm (IEA)

nuclear body (IEA,ISO)

nuclear speck (IEA)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA)

spliceosomal complex (IEA)

Molecular Function

protein binding (ISO)

RNA binding (IBA,IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

spliceosome pathway (IEA)

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.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
4.	GOA pipeline	RGD automated data pipeline
5.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:22658674

Genomics

Comparative Map Data

Smndc1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	262,395,034 - 262,406,104 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	262,386,590 - 262,405,707 (-)	Ensembl				GRCr8
mRatBN7.2	1	252,389,675 - 252,400,749 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	252,389,673 - 252,401,616 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	260,578,802 - 260,589,853 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	267,284,868 - 267,295,919 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	259,940,504 - 259,951,557 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	274,096,068 - 274,107,138 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	274,096,068 - 274,107,138 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	281,509,724 - 281,520,796 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	1	259,596,813 - 259,607,340 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	248,112,016 - 248,123,086 (-)	NCBI		Celera
RGSC_v3.1	1	259,807,858 - 259,817,787 (-)	NCBI
Cytogenetic Map	1	q55	NCBI

SMNDC1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	110,290,730 - 110,304,920 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	110,290,730 - 110,304,963 (-)	Ensembl			hg38	GRCh38
GRCh37	10	112,050,488 - 112,064,678 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	112,042,788 - 112,054,687 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	10	112,042,788 - 112,054,687	NCBI
Celera	10	105,784,468 - 105,796,377 (-)	NCBI		Celera
Cytogenetic Map	10	q25.2	NCBI
HuRef	10	105,683,016 - 105,694,926 (-)	NCBI		HuRef
CHM1_1	10	112,334,567 - 112,346,476 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	111,174,603 - 111,188,795 (-)	NCBI		T2T-CHM13v2.0

Smndc1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	53,367,603 - 53,379,065 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	19	53,367,821 - 53,379,009 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	19	53,379,214 - 53,390,701 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	53,379,390 - 53,390,578 (-)	Ensembl			mm10	GRCm38
MGSCv37	19	53,453,704 - 53,465,063 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	19	53,432,526 - 53,443,885 (-)	NCBI		MGSCv36	mm8
Celera	19	55,561,243 - 55,572,623 (-)	NCBI		Celera
Cytogenetic Map	19	D2	NCBI
cM Map	19	47.67	NCBI

Smndc1
(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_004955485	1,070,236 - 1,081,979 (+)	Ensembl
ChiLan1.0	NW_004955485	1,070,596 - 1,081,979 (+)	NCBI	ChiLan1.0	ChiLan1.0

SMNDC1
(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	8	122,171,810 - 122,183,793 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	122,174,560 - 122,189,122 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	106,881,965 - 106,896,496 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	110,334,594 - 110,346,882 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	110,334,594 - 110,345,633 (-)	Ensembl			panPan2	panpan1.1

SMNDC1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	28	21,660,501 - 21,672,279 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	28	21,661,881 - 21,671,781 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	28	21,813,977 - 21,825,801 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	28	22,186,207 - 22,198,029 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	28	22,186,176 - 22,197,464 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	28	21,746,442 - 21,758,273 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	28	21,750,408 - 21,762,241 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	28	21,886,296 - 21,898,128 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Smndc1
(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	24,369,802 - 24,381,204 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936486	1,180,069 - 1,190,117 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936486	1,180,069 - 1,192,227 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SMNDC1
(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	120,725,387 - 120,739,622 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	14	120,726,077 - 120,739,673 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	131,613,337 - 131,627,220 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SMNDC1
(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	103,217,216 - 103,229,422 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	103,218,308 - 103,228,053 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666048	64,420,375 - 64,432,540 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Smndc1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624737	35,938,946 - 35,956,540 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Smndc1
(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	2	52,807,680 - 52,818,832 (-)	NCBI		Rrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	469
Count of miRNA genes:	251
Interacting mature miRNAs:	293
Transcripts:	ENSRNOT00000020539
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354580	Scort1	Serum corticosterone level QTL 1	3.4		blood corticosterone amount (VT:0005345)	blood corticosterone level (CMO:0001172)	1	154961463	266453731	Rat
634313	Niddm43	Non-insulin dependent diabetes mellitus QTL 43			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	208479811	269633915	Rat
1354646	Kidm18	Kidney mass QTL 18	5.7		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	160573753	266453731	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	224633915	269633915	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	232312773	270518180	Rat
1354652	Kidm20	Kidney mass QTL 20	4.3		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	186658830	266453731	Rat
61327	Eae7	Experimental allergic encephalomyelitis QTL 7	5.6		body mass (VT:0001259)	change in body weight (CMO:0002045)	1	226175591	270518180	Rat
1578775	Iddm21	Insulin dependent diabetes mellitus QTL 21	4.13		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	245782829	270518180	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	205233991	267096252	Rat
1578763	Kidm29	Kidney mass QTL 29	3.3	0.0001	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	1	218829748	263829748	Rat
1354624	Cm35	Cardiac mass QTL35	5.7		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	186658830	266453731	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	205233991	267096252	Rat
631837	Niddm35	Non-insulin dependent diabetes mellitus QTL 35		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	248619887	269633915	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	176288899	270518180	Rat
631836	Stl31	Serum triglyceride level QTL 31	4.64	5e-06	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	1	247133834	270518180	Rat
1549837	Hcar15	Hepatocarcinoma resistance QTL 15		0.05	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	162548015	270518180	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	205233991	267096252	Rat
1598853	Memor3	Memory QTL 3	4.5		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	1	152919152	268496042	Rat
1600390	Niddm64	Non-insulin dependent diabetes mellitus QTL 64		0.003	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	257624997	270518180	Rat
1300108	Rf8	Renal function QTL 8	3.75		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	1	237995023	269633915	Rat
734767	Niddm57	Non-insulin dependent diabetes mellitus QTL 57			body mass (VT:0001259)	body weight (CMO:0000012)	1	233480549	270108840	Rat
1354610	Bw34	Body weight QTL 34	4.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	160573753	266453731	Rat
631215	Stl8	Serum triglyceride level QTL 8	9.27	0.0001	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	1	234540191	270518180	Rat
7387289	Uae45	Urinary albumin excretion QTL 45	2.86	0.0021	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	233204160	270518180	Rat
631843	Bw116	Body weight QTL 116	4.1	0.016	abdominal adipose amount (VT:1000220)	abdominal fat pad weight (CMO:0000088)	1	233480549	270108840	Rat
731175	Uae20	Urinary albumin excretion QTL 20	3.5	0.0018	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	207163993	269633915	Rat
1598839	Rf56	Renal function QTL 56			renal blood flow trait (VT:2000006)	ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)	1	255849111	270518180	Rat
1581544	Rf52	Renal function QTL 52		0.05	urine total protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	1	241569529	269633915	Rat
1354661	Bw33	Body weight QTL 33	5.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	160573753	266453731	Rat
631536	Lnnr2	Liver neoplastic nodule remodeling QTL 2	2.9	0.0005	liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)	1	243953669	270518180	Rat
734769	Niddm58	Non-insulin dependent diabetes mellitus QTL 58			body mass (VT:0001259)	body weight (CMO:0000012)	1	225108840	270108840	Rat
738032	Hcas5	Hepatocarcinoma susceptibility QTL 5	3.12		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	185857683	270518180	Rat
2302040	Pia35	Pristane induced arthritis QTL 35	3.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	1	226175591	270518180	Rat
631669	Iddm9	Insulin dependent diabetes mellitus QTL 9	2.8	0.039	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	1	233349180	270518180	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	228174566	270518180	Rat
724533	Rf51	Renal function QTL 51	5.3	0.0002	kidney plasma flow trait (VT:0005524)	renal plasma flow (CMO:0001914)	1	228180370	266453608	Rat

Markers in Region

D1Swe7

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	252,398,190 - 252,398,396 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	274,104,580 - 274,104,785	NCBI	Rnor6.0
Rnor_5.0	1	281,518,238 - 281,518,443	UniSTS	Rnor5.0
RGSC_v3.4	1	259,604,820 - 259,605,025	UniSTS	RGSC3.4
Celera	1	248,120,528 - 248,120,733	UniSTS
Cytogenetic Map	1	q55	UniSTS

BE101386

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	252,393,793 - 252,394,491 (+)	MAPPER	mRatBN7.2
mRatBN7.2	10	91,870,853 - 91,871,018 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	95,130,947 - 95,131,111	NCBI	Rnor6.0
Rnor_6.0	1	274,100,183 - 274,100,880	NCBI	Rnor6.0
Rnor_5.0	10	94,871,774 - 94,871,938	UniSTS	Rnor5.0
Rnor_5.0	1	281,513,841 - 281,514,538	UniSTS	Rnor5.0
RGSC_v3.4	1	259,600,423 - 259,601,120	UniSTS	RGSC3.4
RGSC_v3.4	10	96,278,191 - 96,278,355	UniSTS	RGSC3.4
Celera	10	90,536,963 - 90,537,127	UniSTS
Celera	1	248,116,131 - 248,116,828	UniSTS
RH 3.4 Map	10	992.8	UniSTS
Cytogenetic Map	1	q55	UniSTS

RH128439

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	252,401,044 - 252,401,735 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	274,107,434 - 274,108,124	NCBI	Rnor6.0
Rnor_5.0	1	281,521,092 - 281,521,782	UniSTS	Rnor5.0
RGSC_v3.4	1	259,607,674 - 259,608,364	UniSTS	RGSC3.4
Celera	1	248,123,382 - 248,124,072	UniSTS
RH 3.4 Map	1	1665.4	UniSTS
Cytogenetic Map	1	q55	UniSTS

RH129397

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	91,871,639 - 91,871,827 (+)	MAPPER	mRatBN7.2
mRatBN7.2	1	252,390,321 - 252,390,509 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	95,119,736 - 95,119,923	NCBI	Rnor6.0
Rnor_6.0	1	274,096,711 - 274,096,898	NCBI	Rnor6.0
Rnor_5.0	10	94,863,620 - 94,863,807	UniSTS	Rnor5.0
Rnor_5.0	1	281,510,369 - 281,510,556	UniSTS	Rnor5.0
Celera	1	248,112,659 - 248,112,846	UniSTS
Celera	10	90,537,749 - 90,537,936	UniSTS
Cytogenetic Map	10	q32.1	UniSTS
Cytogenetic Map	1	q55	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_001025400	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001035234	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NR_051995	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231608	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102802	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063282691	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063282693	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063282694	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC115255	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC097986	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC098697	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB726049	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473986	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CV106705	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	EV778425	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ220088	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ228387	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000020539 ⟹ ENSRNOP00000020539

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	252,390,179 - 252,399,725 (-)	Ensembl
Rnor_6.0 Ensembl	1	274,096,573 - 274,106,502 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000075874 ⟹ ENSRNOP00000068340

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	262,386,590 - 262,404,953 (-)	Ensembl
mRatBN7.2 Ensembl	1	252,390,818 - 252,399,544 (-)	Ensembl
Rnor_6.0 Ensembl	1	274,097,207 - 274,105,933 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000076121 ⟹ ENSRNOP00000068081

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	252,389,679 - 252,401,616 (-)	Ensembl
Rnor_6.0 Ensembl	1	274,096,573 - 274,107,100 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000076197 ⟹ ENSRNOP00000068456

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	274,097,004 - 274,107,100 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000076330

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	274,100,597 - 274,107,069 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000076623

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	274,100,156 - 274,105,989 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000078670 ⟹ ENSRNOP00000071875

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	262,395,034 - 262,405,707 (-)	Ensembl
mRatBN7.2 Ensembl	1	252,389,673 - 252,399,598 (-)	Ensembl
Rnor_6.0 Ensembl	1	274,096,068 - 274,107,138 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000124809 ⟹ ENSRNOP00000108376

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	262,399,781 - 262,404,953 (-)	Ensembl

RefSeq Acc Id:

NM_001025400 ⟹ NP_001020571

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	262,395,034 - 262,405,468 (-)	NCBI
mRatBN7.2	1	252,389,679 - 252,400,113 (-)	NCBI
Rnor_6.0	1	274,096,068 - 274,106,502 (-)	NCBI
Rnor_5.0	1	281,509,724 - 281,520,796 (-)	NCBI
RGSC_v3.4	1	259,596,813 - 259,607,340 (-)	RGD
Celera	1	248,112,016 - 248,122,450 (-)	NCBI

Sequence:

show sequence

CGAGGACGCCGAGCTGTGTTTGGCAAAAGATGTCAGAGGATCTAGCAAAACAGTTGGCCAGCTA
CAAAGCTCAACTCCAGCAAGTAGAAGCTGCTCTATCGGGAAATGGAGAAAATGAAGATCTGCTG
AAACTGAAGAAGGATTTGCAAGAAGTCATAGAACTGACCAAAGACCTTCTGTCAACTCAGCCTT
CGGAAACTCTCACAAGTTCAGACAGCTTTGCTTCTACTCAGCCCACTCATTCATGGAAAGTAGG
GGACAAGTGCATGGCCGTCTGGAGTGAAGATGGACAGTGTTATGAGGCGGAGATCGAGGAGATC
GATGAAGAGAACGGCACCGCTGCGATCACCTTCGCTGTCTATGGCAATGCCGAAGTGACTCCAT
TGTTGAACCTCAAGCCTGTAGAGGAAGGAAGGAAAGCAAAAGAGGACAGCGGCAACAAACCCAT
GTCAAAAAAAGAAATGATTGCCCAGCAGCGTGAATATAAAAAGAAAAAAGCTTTGAAAAAAGCA
CAGAGAATAAAAGAGCTTGAGCAGGAGCGAGAGGACCAGAAGGTGAAATGGCAGCAGTTCAACA
ACAGGGCGTACTCGAAAAACAAGAAAGGCCAGGTAAAGAGGAGTATTTTTGCTTCGCCAGAAAG
TGTAACGGGCAAAGTCGGAGTAGGAACTTGTGGAATTGCTGACAAGCCCATGACACAGTATCAA
GATACATCCAAATACAATGTCAGGCATTTGATGCCTCAGTAGTGAGAAACTGTTGGATTTCATC
TCCGCAGGGCTTTACATTTACCTTTTTATCCTTATATTTTTCTAAAGGTAAATTATTTGTTAGA
TGAGTAAGGGAGATCCGTTGTTGTCATTGTTTGGCTTTGGTAGGATGAAACTTGAAGACATTTG
ATAACTGCTACCATGTAACTTTTCATTGCTACTCACCACAGCTTCTTCAGTATGTTGAACAAGG
CAACTTTTCTAGCTAAGTGCTGCATAAGTCGGCACGTAGATGACTTAGGAACGTCAGGCCACTT
AACTGATGTTGTGTGGACAGTTTGTAAGTCCTAACTTGGGATTTTCAGATGCTTTGCACTTGAT
ATATTCCAACAGTGCAGTGGAAGGGACATCAAGGCAAAACGCCAGCCTGCTGAAGAGAGCGGCT
TCCGTTTTACAACCTGGCACTGTCCAGACGAGCCCGAGTATAGGTTAATTTATAAATGGCAAAG
TTTATTTTGAGGTTTTTTTCCTTGAATTGTTTCCTGGGACTATTAGGTCACCTCTACAATTGAC
TCACCTTGTATTTTTTGTCATTGAGTTTGAATTTTATATTAAAAAACCAAACAAACCATGTTTA
GGATGTGCTCCCCTTCTCTGTTTATTTGGTGTTTTCCTTTGTTGACTTCACTTGTGGTAGTGCT
ACCCGTTTTGGGATGTGTAATGTTTATATGGGAAGACAAAGCTGATGTACAGCCCTGTATACAG
TGTAGATACTATTTTTGTAAAAAACAGAACAAAACCAAAAAAAAAAAAAAAAAAAACAAATCCA
AGGCTAAATTAATGAACAAGAGTACTGAATGTCTTCATGATTACATTTTCCTGTATTTCTTGTG
CATTAATCTGACCATAACTTCCCTGTATATTATGTTCATGTAGCTGAGTTTGTAATTTTTATTA
ACGAGATCAAGTTGCCAGCATTTGTTGGCATAAGTGAAGCACCACAGCTATCCCAAGTTGAGTT
TAAACAAAACAAAGGTAGGGAAAAGGCCTTCCTGTTAATTGGAAGAAGATACTTTTTAGAGTGT
GTGTTAATTTCAGTTTTGTATGTTTAACTTTAATAAATAAAGTCTGTACAA

hide sequence

RefSeq Acc Id:

NM_001035234 ⟹ NP_001030311

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	262,395,034 - 262,406,104 (-)	NCBI
mRatBN7.2	1	252,389,679 - 252,400,749 (-)	NCBI
Rnor_6.0	1	274,096,068 - 274,107,138 (-)	NCBI
Rnor_5.0	1	281,509,724 - 281,520,796 (-)	NCBI
RGSC_v3.4	1	259,596,813 - 259,607,340 (-)	RGD
Celera	1	248,112,016 - 248,123,086 (-)	NCBI

Sequence:

show sequence

GATCTCGCTCGCCTTGTCTTTTCTTCCTGCCTGAGCCCGGCTTTTCTCCCCTCCCCCCTCGCCG
GCGGATTTTTTCCTTTTCCGACCGAATCTCGTCGTGGTGGAAATTTCCCCTGCTGTAGCTGTCC
CTGCCGCCGCTCGGCTCGCTTCCCCGACCCCTGCCCGCTGTCCCATCCCCAGTCCCACCCAAGA
TGTCAGAGGATCTAGCAAAACAGTTGGCCAGCTACAAAGCTCAACTCCAGCAAGTAGAAGCTGC
TCTATCGGGAAATGGAGAAAATGAAGATCTGCTGAAACTGAAGAAGGATTTGCAAGAAGTCATA
GAACTGACCAAAGACCTTCTGTCAACTCAGCCTTCGGAAACTCTCACAAGTTCAGACAGCTTTG
CTTCTACTCAGCCCACTCATTCATGGAAAGTAGGGGACAAGTGCATGGCCGTCTGGAGTGAAGA
TGGACAGTGTTATGAGGCGGAGATCGAGGAGATCGATGAAGAGAACGGCACCGCTGCGATCACC
TTCGCTGTCTATGGCAATGCCGAAGTGACTCCATTGTTGAACCTCAAGCCTGTAGAGGAAGGAA
GGAAAGCAAAAGAGGACAGCGGCAACAAACCCATGTCAAAAAAAGAAATGATTGCCCAGCAGCG
TGAATATAAAAAGAAAAAAGCTTTGAAAAAAGCACAGAGAATAAAAGAGCTTGAGCAGGAGCGA
GAGGACCAGAAGGTGAAATGGCAGCAGTTCAACAACAGGGCGTACTCGAAAAACAAGAAAGGCC
AGGTAAAGAGGAGTATTTTTGCTTCGCCAGAAAGTGTAACGGGCAAAGTCGGAGTAGGAACTTG
TGGAATTGCTGACAAGCCCATGACACAGTATCAAGATACATCCAAATACAATGTCAGGCATTTG
ATGCCTCAGTAGTGAGAAACTGTTGGATTTCATCTCCGCAGGGCTTTACATTTACCTTTTTATC
CTTATATTTTTCTAAAGGTAAATTATTTGTTAGATGAGTAAGGGAGATCCGTTGTTGTCATTGT
TTGGCTTTGGTAGGATGAAACTTGAAGACATTTGATAACTGCTACCATGTAACTTTTCATTGCT
ACTCACCACAGCTTCTTCAGTATGTTGAACAAGGCAACTTTTCTAGCTAAGTGCTGCATAAGTC
GGCACGTAGATGACTTAGGAACGTCAGGCCACTTAACTGATGTTGTGTGGACAGTTTGTAAGTC
CTAACTTGGGATTTTCAGATGCTTTGCACTTGATATATTCCAACAGTGCAGTGGAAGGGACATC
AAGGCAAAACGCCAGCCTGCTGAAGAGAGCGGCTTCCGTTTTACAACCTGGCACTGTCCAGACG
AGCCCGAGTATAGGTTAATTTATAAATGGCAAAGTTTATTTTGAGGTTTTTTTCCTTGAATTGT
TTCCTGGGACTATTAGGTCACCTCTACAATTGACTCACCTTGTATTTTTTGTCATTGAGTTTGA
ATTTTATATTAAAAAACCAAACAAACCATGTTTAGGATGTGCTCCCCTTCTCTGTTTATTTGGT
GTTTTCCTTTGTTGACTTCACTTGTGGTAGTGCTACCCGTTTTGGGATGTGTAATGTTTATATG
GGAAGACAAAGCTGATGTACAGCCCTGTATACAGTGTAGATACTATTTTTGTAAAAAACAGAAC
AAAACCAAAAAAAAAAAAAAAAAAAACAAATCCAAGGCTAAATTAATGAACAAGAGTACTGAAT
GTCTTCATGATTACATTTTCCTGTATTTCTTGTGCATTAATCTGACCATAACTTCCCTGTATAT
TATGTTCATGTAGCTGAGTTTGTAATTTTTATTAACGAGATCAAGTTGCCAGCATTTGTTGGCA
TAAGTGAAGCACCACAGCTATCCCAAGTTGAGTTTAAACAAAACAAAGGTAGGGAAAAGGCCTT
CCTGTTAATTGGAAGAAGATACTTTTTAGAGTGTGTGTTAATTTCAGTTTTGTATGTTTAACTT
TAATAAATAAAGTCTGTACAA

hide sequence

RefSeq Acc Id:

NR_051995

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	262,395,034 - 262,406,104 (-)	NCBI
mRatBN7.2	1	252,389,679 - 252,400,749 (-)	NCBI
Rnor_6.0	1	274,096,068 - 274,107,138 (-)	NCBI
Rnor_5.0	1	281,509,724 - 281,520,796 (-)	NCBI
Celera	1	248,112,016 - 248,123,086 (-)	NCBI

Sequence:

show sequence

GATCTCGCTCGCCTTGTCTTTTCTTCCTGCCTGAGCCCGGCTTTTCTCCCCTCCCCCCTCGCCG
GCGGATTTTTTCCTTTTCCGACCGAATCTCGTCGTGGTGGAAATTTCCCCTGCTGTAGCTGTCC
CTGCCGCCGCTCGGCTCGCTTCCCCGACCCCTGCCCGCTGTCCCATCCCCAGTCCCACCCAAGA
TGTCAGAGGATCTAGCAAAACAGTTGGCCAGCTACAAAGCTCAACTCCAGCAAGTAGAAGCTGC
TCTATCGGGAAATGGAGAAAATGAAGATCTGCTGAAACTGAAGAAGGATTTGCAAGAAGTCATA
GAACTGACCAAAGACCTTCTGTCAACTCAGCCTTCGGAAACTCTCACAAGTTCAGACAGCTTTG
CTTCTACTCAGCCCACTCATTCATGGAAAGTAGGGGACAAGTGCATGGCCGTCTGGAGTGAAGA
TGGACACCATGATATCTTTACAGGTGTTATGAGGCGGAGATCGAGGAGATCGATGAAGAGAACG
GCACCGCTGCGATCACCTTCGCTGTCTATGGCAATGCCGAAGTGACTCCATTGTTGAACCTCAA
GCCTGTAGAGGAAGGAAGGAAAGCAAAAGAGGACAGCGGCAACAAACCCATGTCAAAAAAAGAA
ATGATTGCCCAGCAGCGTGAATATAAAAAGAAAAAAGCTTTGAAAAAAGCACAGAGAATAAAAG
AGCTTGAGCAGGAGCGAGAGGACCAGAAGGTGAAATGGCAGCAGTTCAACAACAGGGCGTACTC
GAAAAACAAGAAAGGCCAGGTAAAGAGGAGTATTTTTGCTTCGCCAGAAAGTGTAACGGGCAAA
GTCGGAGTAGGAACTTGTGGAATTGCTGACAAGCCCATGACACAGTATCAAGATACATCCAAAT
ACAATGTCAGGCATTTGATGCCTCAGTAGTGAGAAACTGTTGGATTTCATCTCCGCAGGGCTTT
ACATTTACCTTTTTATCCTTATATTTTTCTAAAGGTAAATTATTTGTTAGATGAGTAAGGGAGA
TCCGTTGTTGTCATTGTTTGGCTTTGGTAGGATGAAACTTGAAGACATTTGATAACTGCTACCA
TGTAACTTTTCATTGCTACTCACCACAGCTTCTTCAGTATGTTGAACAAGGCAACTTTTCTAGC
TAAGTGCTGCATAAGTCGGCACGTAGATGACTTAGGAACGTCAGGCCACTTAACTGATGTTGTG
TGGACAGTTTGTAAGTCCTAACTTGGGATTTTCAGATGCTTTGCACTTGATATATTCCAACAGT
GCAGTGGAAGGGACATCAAGGCAAAACGCCAGCCTGCTGAAGAGAGCGGCTTCCGTTTTACAAC
CTGGCACTGTCCAGACGAGCCCGAGTATAGGTTAATTTATAAATGGCAAAGTTTATTTTGAGGT
TTTTTTCCTTGAATTGTTTCCTGGGACTATTAGGTCACCTCTACAATTGACTCACCTTGTATTT
TTTGTCATTGAGTTTGAATTTTATATTAAAAAACCAAACAAACCATGTTTAGGATGTGCTCCCC
TTCTCTGTTTATTTGGTGTTTTCCTTTGTTGACTTCACTTGTGGTAGTGCTACCCGTTTTGGGA
TGTGTAATGTTTATATGGGAAGACAAAGCTGATGTACAGCCCTGTATACAGTGTAGATACTATT
TTTGTAAAAAACAGAACAAAACCAAAAAAAAAAAAAAAAAAAACAAATCCAAGGCTAAATTAAT
GAACAAGAGTACTGAATGTCTTCATGATTACATTTTCCTGTATTTCTTGTGCATTAATCTGACC
ATAACTTCCCTGTATATTATGTTCATGTAGCTGAGTTTGTAATTTTTATTAACGAGATCAAGTT
GCCAGCATTTGTTGGCATAAGTGAAGCACCACAGCTATCCCAAGTTGAGTTTAAACAAAACAAA
GGTAGGGAAAAGGCCTTCCTGTTAATTGGAAGAAGATACTTTTTAGAGTGTGTGTTAATTTCAG
TTTTGTATGTTTAACTTTAATAAATAAAGTCTGTACAA

hide sequence

RefSeq Acc Id:

XM_039102802 ⟹ XP_038958730

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	262,395,379 - 262,405,502 (-)	NCBI
mRatBN7.2	1	252,389,675 - 252,399,987 (-)	NCBI

RefSeq Acc Id:

XM_063282691 ⟹ XP_063138761

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	262,395,379 - 262,404,955 (-)	NCBI

RefSeq Acc Id:

XM_063282693 ⟹ XP_063138763

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	262,395,379 - 262,404,894 (-)	NCBI

RefSeq Acc Id:

XM_063282694 ⟹ XP_063138764

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	262,399,086 - 262,405,900 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001020571	(Get FASTA)	NCBI Sequence Viewer
	NP_001030311	(Get FASTA)	NCBI Sequence Viewer
	XP_038958730	(Get FASTA)	NCBI Sequence Viewer
	XP_063138761	(Get FASTA)	NCBI Sequence Viewer
	XP_063138763	(Get FASTA)	NCBI Sequence Viewer
	XP_063138764	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH97986	(Get FASTA)	NCBI Sequence Viewer
	AAH98697	(Get FASTA)	NCBI Sequence Viewer
	EDL94425	(Get FASTA)	NCBI Sequence Viewer
	EDL94426	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000020539.5
	ENSRNOP00000071875
GenBank Protein	Q4QQU6	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001030311 ⟸ NM_001035234

- UniProtKB:

Q4KM88 (UniProtKB/Swiss-Prot), Q4QQU6 (UniProtKB/Swiss-Prot), A6JHV2 (UniProtKB/TrEMBL), A0A8L2UPB2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSEDLAKQLASYKAQLQQVEAALSGNGENEDLLKLKKDLQEVIELTKDLLSTQPSETLTSSDSF
ASTQPTHSWKVGDKCMAVWSEDGQCYEAEIEEIDEENGTAAITFAVYGNAEVTPLLNLKPVEEG
RKAKEDSGNKPMSKKEMIAQQREYKKKKALKKAQRIKELEQEREDQKVKWQQFNNRAYSKNKKG
QVKRSIFASPESVTGKVGVGTCGIADKPMTQYQDTSKYNVRHLMPQ

hide sequence

RefSeq Acc Id:

NP_001020571 ⟸ NM_001025400

- UniProtKB:

Q4KM88 (UniProtKB/Swiss-Prot), Q4QQU6 (UniProtKB/Swiss-Prot), A6JHV2 (UniProtKB/TrEMBL), A0A8L2UPB2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSEDLAKQLASYKAQLQQVEAALSGNGENEDLLKLKKDLQEVIELTKDLLSTQPSETLTSSDSF
ASTQPTHSWKVGDKCMAVWSEDGQCYEAEIEEIDEENGTAAITFAVYGNAEVTPLLNLKPVEEG
RKAKEDSGNKPMSKKEMIAQQREYKKKKALKKAQRIKELEQEREDQKVKWQQFNNRAYSKNKKG
QVKRSIFASPESVTGKVGVGTCGIADKPMTQYQDTSKYNVRHLMPQ

hide sequence

Ensembl Acc Id:

ENSRNOP00000068340 ⟸ ENSRNOT00000075874

Ensembl Acc Id:

ENSRNOP00000020539 ⟸ ENSRNOT00000020539

Ensembl Acc Id:

ENSRNOP00000068456 ⟸ ENSRNOT00000076197

Ensembl Acc Id:

ENSRNOP00000071875 ⟸ ENSRNOT00000078670

Ensembl Acc Id:

ENSRNOP00000068081 ⟸ ENSRNOT00000076121

RefSeq Acc Id:	XP_038958730 ⟸ XM_039102802
- Peptide Label:	isoform X1
- UniProtKB:	Q4QQU6 (UniProtKB/Swiss-Prot), Q4KM88 (UniProtKB/Swiss-Prot), A6JHV2 (UniProtKB/TrEMBL), A0A8L2UPB2 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063138761 ⟸ XM_063282691
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_063138763 ⟸ XM_063282693
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_063138764 ⟸ XM_063282694
- Peptide Label:	isoform X3

Ensembl Acc Id:

ENSRNOP00000108376 ⟸ ENSRNOT00000124809

Protein Domains

Tudor

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q4QQU6-F1-model_v2	AlphaFold	Q4QQU6	1-238	view protein structure

Transcriptome

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

Promoters

RGD ID:

13690993

Promoter ID:

EPDNEW_R1516

Type:

initiation region

Name:

Smndc1_1

Description:

survival motor neuron domain containing 1

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	1	274,107,123 - 274,107,183	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309151	AgrOrtholog
BioCyc Gene	G2FUF-55396	BioCyc
Ensembl Genes	ENSRNOG00000014833	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000020539.8	UniProtKB/Swiss-Prot
	ENSRNOT00000078670	ENTREZGENE
Gene3D-CATH	2.30.30.140	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7386640	IMAGE-MGC_LOAD
	IMAGE:7444662	IMAGE-MGC_LOAD
InterPro	Survival_motor_neuron	UniProtKB/Swiss-Prot
	Tudor	UniProtKB/Swiss-Prot
KEGG Report	rno:287768	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:112663	IMAGE-MGC_LOAD
	MGC:116124	IMAGE-MGC_LOAD
NCBI Gene	287768	ENTREZGENE
PANTHER	SURVIVAL OF MOTOR NEURON-RELATED-SPLICING FACTOR 30	UniProtKB/Swiss-Prot
	SURVIVAL OF MOTOR NEURON-RELATED-SPLICING FACTOR 30-RELATED	UniProtKB/Swiss-Prot
Pfam	SMN	UniProtKB/Swiss-Prot
PhenoGen	Smndc1	PhenoGen
PROSITE	TUDOR	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000014833	RatGTEx
SMART	TUDOR	UniProtKB/Swiss-Prot
Superfamily-SCOP	Tudor/PWWP/MBT	UniProtKB/Swiss-Prot
UniProt	A0A096MK12_RAT	UniProtKB/TrEMBL
	A0A8L2R5L3_RAT	UniProtKB/TrEMBL
	A0A8L2UPB2	ENTREZGENE
	A0ABK0LT09_RAT	UniProtKB/TrEMBL
	A6JHV2	ENTREZGENE, UniProtKB/TrEMBL
	Q4KM88	ENTREZGENE
	Q4QQU6	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	Q4KM88	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-12-06	Smndc1	survival motor neuron domain containing 1	Smndc1_predicted	survival motor neuron domain containing 1 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Smndc1_predicted	survival motor neuron domain containing 1 (predicted)			Symbol and Name status set to approved	70820	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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Imported Annotations - KEGG (archival)