Slc35a1 (solute carrier family 35 member A1)

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Gene: Slc35a1 (solute carrier family 35 member A1) Rattus norvegicus

Analyze

Symbol:

Slc35a1

Name:

solute carrier family 35 member A1

RGD ID:

1311359

Description:

Predicted to have CMP-N-acetylneuraminate transmembrane transporter activity; UDP-galactose transmembrane transporter activity; and antiporter activity. Predicted to be involved in CMP-N-acetylneuraminate transmembrane transport. Predicted to localize to integral component of Golgi membrane. Human ortholog(s) of this gene implicated in congenital disorder of glycosylation type IIf. Orthologous to human SLC35A1 (solute carrier family 35 member A1); INTERACTS WITH 3-chloropropane-1,2-diol; bisphenol A; cadmium dichloride.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

CMP-sialic acid transporter; LOC313139; solute carrier family 35 (CMP-sialic acid transporter), member 1; solute carrier family 35 (CMP-sialic acid transporter), member A1

RGD Orthologs

Human

Mouse

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):	SLC35A1 (solute carrier family 35 member A1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Slc35a1 (solute carrier family 35 (CMP-sialic acid transporter), member 1)	HGNC	Treefam, NCBI, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Slc35a1 (solute carrier family 35 member A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SLC35A1 (solute carrier family 35 member A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SLC35A1 (solute carrier family 35 member A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Slc35a1 (solute carrier family 35 member A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SLC35A1 (solute carrier family 35 member A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	SLC35A1 (solute carrier family 35 member A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Slc35a1 (solute carrier family 35 member A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SLC35A1 (solute carrier family 35 member A1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Slc35a1 (solute carrier family 35 (CMP-sialic acid transporter), member 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	slc35a1 (solute carrier family 35 member A1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Ugalt	Alliance	DIOPT (OMA\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	ugtp-1	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Caenorhabditis elegans (roundworm):	nstp-3	Alliance	DIOPT (OMA\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	nstp-8	Alliance	DIOPT (OMA\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	nstp-6	Alliance	DIOPT (OMA\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	nstp-7	Alliance	DIOPT (OMA\|PANTHER\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	49,225,599 - 49,248,405 (-)	NCBI
Rnor_6.0 Ensembl	5	50,119,881 - 50,142,724 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	50,119,880 - 50,142,689 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	54,688,834 - 54,711,626 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	51,271,752 - 51,290,346 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	51,272,681 - 51,301,972 (-)	NCBI
Celera	5	47,976,033 - 47,994,630 (-)	NCBI		Celera
Cytogenetic Map	5	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

congenital disorder of glycosylation (ISO)

congenital disorder of glycosylation type IIf (ISO)

pontocerebellar hypoplasia (ISO)

pontocerebellar hypoplasia type 1B (ISO)

pontocerebellar hypoplasia type 6 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

(S)-nicotine (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

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

2-hydroxypropanoic acid (ISO)

2-methylcholine (ISO)

3-chloropropane-1,2-diol (EXP)

5-aza-2'-deoxycytidine (ISO)

acrolein (ISO)

alpha-pinene (ISO)

bisphenol A (EXP)

butan-1-ol (ISO)

cadmium dichloride (EXP)

cisplatin (ISO)

clobetasol (ISO)

clofibrate (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

dextran sulfate (ISO)

dicrotophos (ISO)

diuron (EXP)

ethanol (ISO)

finasteride (EXP)

folic acid (ISO)

methyl methanesulfonate (ISO)

nickel atom (ISO)

nicotine (ISO)

ozone (ISO)

perfluorooctanoic acid (EXP)

potassium chromate (ISO)

quercetin (ISO)

rac-lactic acid (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

carbohydrate transport (IEA)

CMP-N-acetylneuraminate transmembrane transport (ISO)

UDP-galactose transmembrane transport (IEA)

Cellular Component

integral component of Golgi membrane (IBA)

integral component of membrane (ISO)

Molecular Function

antiporter activity (ISO)

CMP-N-acetylneuraminate transmembrane transporter activity (ISO)

protein binding (ISO)

UDP-galactose transmembrane transporter activity (IBA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	GOA data from the GO Consortium
3.	MGD data from the GO Consortium
4.	OMIM Disease Annotation Pipeline
5.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:30985278

Genomics

Comparative Map Data

Slc35a1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	49,225,599 - 49,248,405 (-)	NCBI
Rnor_6.0 Ensembl	5	50,119,881 - 50,142,724 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	50,119,880 - 50,142,689 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	54,688,834 - 54,711,626 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	51,271,752 - 51,290,346 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	51,272,681 - 51,301,972 (-)	NCBI
Celera	5	47,976,033 - 47,994,630 (-)	NCBI		Celera
Cytogenetic Map	5	q21	NCBI

SLC35A1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	6	87,470,623 - 87,512,336 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	6	87,472,974 - 87,512,336 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	6	88,182,692 - 88,222,054 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	88,239,414 - 88,278,766 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	6	88,239,413 - 88,278,766	NCBI
Celera	6	88,601,449 - 88,640,875 (+)	NCBI
Cytogenetic Map	6	q15	NCBI
HuRef	6	85,398,693 - 85,438,291 (+)	NCBI		HuRef
CHM1_1	6	88,280,066 - 88,319,504 (+)	NCBI		CHM1_1

Slc35a1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	34,663,257 - 34,688,113 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	4	34,663,257 - 34,687,438 (-)	Ensembl
GRCm38	4	34,663,257 - 34,688,113 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	34,663,257 - 34,687,438 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	34,610,506 - 34,634,687 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	4	34,852,144 - 34,876,240 (-)	NCBI			mm8
Celera	4	34,392,843 - 34,405,208 (-)	NCBI		Celera
Cytogenetic Map	4	A5	NCBI

Slc35a1
(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_004955411	14,443,839 - 14,468,246 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955411	14,443,957 - 14,469,590 (+)	NCBI	ChiLan1.0	ChiLan1.0

SLC35A1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	6	88,624,423 - 88,663,940 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	88,624,423 - 88,663,940 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	6	85,349,674 - 85,389,462 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

SLC35A1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	12	46,968,664 - 46,992,620 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	12	46,968,521 - 46,991,872 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	12	46,776,734 - 46,799,860 (+)	NCBI
ROS_Cfam_1.0	12	47,774,701 - 47,798,640 (+)	NCBI
UMICH_Zoey_3.1	12	47,066,605 - 47,089,701 (+)	NCBI
UNSW_CanFamBas_1.0	12	46,994,022 - 47,017,198 (+)	NCBI
UU_Cfam_GSD_1.0	12	47,183,318 - 47,206,486 (+)	NCBI

Slc35a1
(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_024404946	82,094,861 - 82,126,278 (+)	NCBI
SpeTri2.0	NW_004936510	4,344,765 - 4,376,009 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC35A1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	55,788,530 - 55,895,769 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	55,859,619 - 55,895,785 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	62,552,706 - 62,588,752 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC35A1
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	13	11,957,786 - 11,993,746 (+)	NCBI
ChlSab1.1 Ensembl	13	11,958,122 - 11,996,471 (+)	Ensembl
Vero_WHO_p1.0	NW_023666040	188,212,181 - 188,248,088 (+)	NCBI

Slc35a1
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624799	6,805,364 - 6,829,288 (-)	NCBI

Position Markers

RH143460

Rat Assembly	Chr	Position (strand)	Source	JBrowse
RH 3.4 Map	5	267.5	UniSTS
Cytogenetic Map	5	q21	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
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	1	89432042	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	1	93273395	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	136640934	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	1525098	78720537	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	1666587	71552720	Rat
2293666	Bmd38	Bone mineral density QTL 38	4.4		femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	5	8632285	53632285	Rat
7394712	Emca13	Estrogen-induced mammary cancer QTL 13			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	9514842	103580403	Rat
634305	Mamtr1	Mammary tumor resistance QTL 1		0.0001	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	12651967	117554267	Rat
1641903	Alcrsp3	Alcohol response QTL 3			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	13288888	58288888	Rat
1600358	Mamtr5	Mammary tumor resistance QTL 5			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	18847913	63847913	Rat
1358353	Srcrtb2	Stress Responsive Cort Basal QTL 2	3.48	0.003	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	18847913	76608178	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	21904363	66904363	Rat
1578767	Stresp17	Stress response QTL 17	4.3	0.01	blood aldosterone amount (VT:0005346)	plasma aldosterone level (CMO:0000551)	5	29078899	74078899	Rat
1578776	Stresp18	Stress response QTL 18	2.9		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	5	29078899	74078899	Rat
6903292	Stl28	Serum triglyceride level QTL 28	2.6	0.0073	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	5	29641661	74641661	Rat
6903306	Scl35	Serum cholesterol QTL 35	2.6	0.0073	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	29641661	74641661	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	31926122	136640934	Rat
1298067	Scl15	Serum cholesterol level QTL 15	4.8	0.001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	34402409	79402409	Rat
1302786	Kidm8	Kidney mass QTL 8	28.15		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	34402409	79402409	Rat
1598807	Glom12	Glomerulus QTL 12	2.7		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	5	34402409	79402409	Rat
1576317	Eutr2	Estrogen induced uterine response QTL 2		0.01	uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	35225432	108092802	Rat
2316959	Gluco59	Glucose level QTL 59	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	35661945	117554267	Rat
1641922	Alcrsp8	Alcohol response QTL 8			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	5	35788756	70742105	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	35788756	147487820	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40777918	154732375	Rat
1331773	Scl26	Serum cholesterol level QTL 26	3.065		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	44404276	89432042	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	44404276	134502294	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	47745646	167946134	Rat
1300115	Hrtrt7	Heart rate QTL 7	2.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	48722038	93587756	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	349
Count of miRNA genes:	210
Interacting mature miRNAs:	266
Transcripts:	ENSRNOT00000011969
Prediction methods:	Microtar, Miranda, 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.

Expression

RNA-SEQ Expression

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

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	30	57	41	19	41	1	3	72	35	34	11	1
Low		13					7	8	2		7		7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001107924	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006237996	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213102	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000161	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000011969 ⟹ ENSRNOP00000011969

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	5	50,119,881 - 50,138,475 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000081150 ⟹ ENSRNOP00000071048

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	5	50,120,590 - 50,142,724 (-)	Ensembl

RefSeq Acc Id:

NM_001107924 ⟹ NP_001101394

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	49,225,600 - 49,244,192 (-)	NCBI
Rnor_6.0	5	50,119,881 - 50,138,475 (-)	NCBI
Rnor_5.0	5	54,688,834 - 54,711,626 (-)	NCBI
RGSC_v3.4	5	51,271,752 - 51,290,346 (-)	RGD
Celera	5	47,976,033 - 47,994,630 (-)	RGD

Sequence:

show sequence

TTCCAGAAAATGTCAGTCTATTCTTCAAACTATACTGCTTGACAGTGATGACTCTGGTGGCTGC
CGCTTATACCATAGCTTTAAGATATACAAGGACAACAGCGGAAGGACTCTACTTTTCAACCACA
GCCGTGTGCATCACAGAAGTTATAAAGTTACTGATAAGTGTCGGCCTTCTAGCTAAAGAAACAG
GCAGTTTGGGTAGATTTAAAGCCTCTTTGAGTGAAAACGTCTTGGGGAGCCCTAAGGAGCTGCT
GAAGTTAAGTGTGCCGTCACTGGTGTATGCTGTGCAGAACAACATGGCTTTCCTAGCTCTCAGT
AACCTGGATGCAGCAGTGTACCAGGTGACCTATCAACTGAAGATTCCCTGCACTGCTTTATGTA
CTGTTTTAATGTTAAATCGATCACTCAGCAAACTACAGTGGATTTCGGTCTTCATGCTGTGTGG
TGGGGTCACACTTGTACAGTGGAAACCAGCCCAAGCTACAAAAGTCGTGGTAGCGCAGAACCCG
TTGTTAGGCTTTGGAGCTATAGCCATTGCTGTGCTGTGCTCGGGATTTGCAGGAGTTTATTTTG
AAAAAGTTTTAAAGAGTTCAGACACTTCCCTTTGGGTGAGAAACATTCAGATGTATCTGTCAGG
GATCGCTGTGACATTAGCTGGTACCTACTTGTCGGATGGCGCTGAAATTAAAGAAAAAGGATTT
TTCTATGGCTACACGTATTATGTCTGGTTTGTTATCTTCCTTGCTAGTGTGGGAGGCCTCTACA
CGTCAGTGGTGGTGAAGTACACAGACAACATCATGAAAGGCTTCTCTGCGGCCGCAGCCATTGT
TCTGTCTACCGTTGCCTCAGTCATACTGTTTGGATTGCAGATAACACTTTCATTTACACTGGGA
GCTCTTCTTGTATGTGTTTCCATTTATCTCTATGGGTTACCCAGACAAGATACCACATCCATTC
AACAAGAAACAACTTCAAAAGAAAGAATCATTGGTGTGTGATTTGAATCTCAAGAGATTCCTAT
AAGGACTAAACTGTTGATAATAAATTAGAGCCTTAAGTCAACCCCAGATGGTAGTTTAAACATT
GTCAACAAATTAACTGTATGACATAAGAATCAAGAAGAAAACTCTGAATGAAATGCTAAAACAG
ATTTAATTTGGGTGTGTTTGGTGTCAAGTTATATTATTTCAGAATGAAGGACTTTGTGTGTGTG
TGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGATAGAGAGATAGAGAGATCTTG
TACATAGAGCATGGAGGTGACAATGGTGTGTGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTGTG
TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGATATCCACAGAGCATGGAGACAACAATGTAGG
TCAGAGCACCAGGTGAAACTACAATATTCAAGCAACAACGTTTAAGACAGTGTCTGAGGGTTCA
AGTGCCAAAGCCGTTTCTGTGCACACTGTTCTGTTGTTCAGGTACTGGGAGAGGAAGGTGAGCC
TTCTTCTCCAGTTTATGGATAGTACTTTGTCCCCATAGCAGTAAAAGATTTGGCTTCTCTTATG
GAAGTGAGGAAGGACAGTTCGGAACACTACTCAGTGTGTAACTTATAAAACAGGTCTACTTCAT
AGCTCAGACACTGACTTCTAGGTGACGACTGAGAACTTCAGTGATGTATTTGTGCCATTTACTG
ACTGGTTCCTATTTCTTTGCTGTCAGCTGATATACTTTTCAGAAAATTTTATAAGCCGCTTTTA
TACTTTCTTTTTTATAAAGTATGGTTACCTGTTGGGCTCTCAATTTGTGACTTTTAGTGATTTT
AAAATATTTCTATAATGTTAATGAGGAAATCCAGCAATAAACTTATTTATATC

hide sequence

RefSeq Acc Id:

XM_006237996 ⟹ XP_006238058

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	49,225,599 - 49,248,405 (-)	NCBI
Rnor_6.0	5	50,119,880 - 50,142,689 (-)	NCBI
Rnor_5.0	5	54,688,834 - 54,711,626 (-)	NCBI

Sequence:

show sequence

AGCTGCGGTTTTCAGAGCCCCGGTAGGACCGGGTTTCCCAGACTTGTCGCTCCGCACGCCGCGC
GGCTTCCGCCGTAGCCCCTGCTTCCTCCTCGCGGGTCTGGTGCGGCGGGCTCTCTAGGCCGGCG
TGTCTCTATGGCCGCAGGGCCGTCAGTTCCGCAGGCTCTCTCTGCACCATGGCTCCGGCAAGAG
AAAATGTCAGTCTATTCTTCAAACTATACTGCTTGACAGTGATGACTCTGGTGGCTGCCGCTTA
TACCATAGCTTTAAGATATACAAGGACAACAGCGGAAGGACTCTACTTTTCAACCACAGCCGTG
TGCATCACAGAAGTTATAAAGTTACTGATAAGTGTCGGCCTTCTAGCTAAAGAAACAGGCAGTT
TGGGTAGATTTAAAGCCTCTTTGAGTGAAAACGTCTTGGGGAGCCCTAAGGAGCTGCTGAAGTT
AAGTGTGCCGTCACTGGTGTATGCTGTGCAGAACAACATGGCTTTCCTAGCTCTCAGTAACCTG
GATGCAGCAGTGTACCAGGTGACCTATCAACTGAAGATTCCCTGCACTGCTTTATGTACTGTTT
TAATGTTAAATCGATCACTCAGCAAACTACAGTGGATTTCGGTCTTCATGCTGTGTGGTGGGGT
CACACTTGTACAGTGGAAACCAGCCCAAGCTACAAAAGTCGTGGTAGCGCAGAACCCGTTGTTA
GGCTTTGGAGCTATAGCCATTGCTGTGCTGTGCTCGGGATTTGCAGGAGTTTATTTTGAAAAAG
TTTTAAAGAGTTCAGACACTTCCCTTTGGGTGAGAAACATTCAGATGTATCTGTCAGGGATCGC
TGTGACATTAGCTGGTACCTACTTGTCGGATGGCGCTGAAATTAAAGAAAAAGGATTTTTCTAT
GGCTACACGTATTATGTCTGGTTTGTTATCTTCCTTGCTAGTGTGGGAGGCCTCTACACGTCAG
TGGTGGTGAAGTACACAGACAACATCATGAAAGGCTTCTCTGCGGCCGCAGCCATTGTTCTGTC
TACCGTTGCCTCAGTCATACTGTTTGGATTGCAGATAACACTTTCATTTACACTGGGAGCTCTT
CTTGTATGTGTTTCCATTTATCTCTATGGGTTACCCAGACAAGATACCACATCCATTCAACAAG
AAACAACTTCAAAAGAAAGAATCATTGGTGTGTGATTTGAATCTCAAGAGATTCCTATAAGGAC
TAAACTGTTGATAATAAATTAGAGCCTTAAGTCAACCCCAGATGGTAGTTTAAACATTGTCAAC
AAATTAACTGTATGACATAAGAATCAAGAAGAAAACTCTGAATGAAATGCTAAAACAGATTTAA
TTTGGGTGTGTTTGGTGTCAAGTTATATTATTTCAGAATGAAGGACTTTGTGTGTGTGTGTGTG
TGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGATAGAGAGATAGAGAGATCTTGTACATA
GAGCATGGAGGTGACAATGGTGTGTGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTGTGTGTGTG
TGTGTGTGTGTGTGTGTGTGTGTGTGATATCCACAGAGCATGGAGACAACAATGTAGGTCAGAG
CACCAGGTGAAACTACAATATTCAAGCAACAACGTTTAAGACAGTGTCTGAGGGTTCAAGTGCC
AAAGCCGTTTCTGTGCACACTGTTCTGTTGTTCAGGTACTGGGAGAGGAAGGTGAGCCTTCTTC
TCCAGTTTATGGATAGTACTTTGTCCCCATAGCAGTAAAAGATCTGGCTTCTCTTATGGAAGTG
AGGAAGGACAGTTCGGAACACTACTCAGTGTGTAACTTATAAAACAGGTCTACTTCATAGCTCA
GACACTGACTTCTAGGTGACGACTGAGAACTTCAGTGATGTATTTGTGCCATTTACTGACTGGT
TCCTATTTCTTTGCTGTCAGCTGATATACTTTTCAGAAAATTTTATAAGCCGCTTTTATACTTT
CTTTTTTATAAAGTATGGTTACCTGTTGGGCTCTCAATTTGTGACTTTTAGTGATTTTAAAATA
TTTCTATAATGTTAATGAGGAAATCCAGCAATAAACTTATTTATATCA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001101394	(Get FASTA)	NCBI Sequence Viewer
	XP_006238058	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL98597	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001101394 ⟸ NM_001107924

- UniProtKB:

D3ZZ48 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MTLVAAAYTIALRYTRTTAEGLYFSTTAVCITEVIKLLISVGLLAKETGSLGRFKASLSENVLG
SPKELLKLSVPSLVYAVQNNMAFLALSNLDAAVYQVTYQLKIPCTALCTVLMLNRSLSKLQWIS
VFMLCGGVTLVQWKPAQATKVVVAQNPLLGFGAIAIAVLCSGFAGVYFEKVLKSSDTSLWVRNI
QMYLSGIAVTLAGTYLSDGAEIKEKGFFYGYTYYVWFVIFLASVGGLYTSVVVKYTDNIMKGFS
AAAAIVLSTVASVILFGLQITLSFTLGALLVCVSIYLYGLPRQDTTSIQQETTSKERIIGV

hide sequence

RefSeq Acc Id:	XP_006238058 ⟸ XM_006237996
- Peptide Label:	isoform X1
- UniProtKB:	A0A0G2JZH4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAPARENVSLFFKLYCLTVMTLVAAAYTIALRYTRTTAEGLYFSTTAVCITEVIKLLISVGLLA KETGSLGRFKASLSENVLGSPKELLKLSVPSLVYAVQNNMAFLALSNLDAAVYQVTYQLKIPCT ALCTVLMLNRSLSKLQWISVFMLCGGVTLVQWKPAQATKVVVAQNPLLGFGAIAIAVLCSGFAG VYFEKVLKSSDTSLWVRNIQMYLSGIAVTLAGTYLSDGAEIKEKGFFYGYTYYVWFVIFLASVG GLYTSVVVKYTDNIMKGFSAAAAIVLSTVASVILFGLQITLSFTLGALLVCVSIYLYGLPRQDT TSIQQETTSKERIIGV hide sequence

RefSeq Acc Id:

ENSRNOP00000011969 ⟸ ENSRNOT00000011969

RefSeq Acc Id:

ENSRNOP00000071048 ⟸ ENSRNOT00000081150

Transcriptome

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

Promoters

RGD ID:

13693625

Promoter ID:

EPDNEW_R4144

Type:

initiation region

Name:

Slc35a1_1

Description:

solute carrier family 35 member A1

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	50,142,650 - 50,142,710	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1311359	AgrOrtholog
Ensembl Genes	ENSRNOG00000008908	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000011969	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000071048	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000011969	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000081150	UniProtKB/TrEMBL
InterPro	Nuc_sug_transpt	UniProtKB/TrEMBL
KEGG Report	rno:313139	UniProtKB/TrEMBL
NCBI Gene	313139	ENTREZGENE
PANTHER	Nuc_sug_transpt	UniProtKB/TrEMBL
Pfam	Nuc_sug_transp	UniProtKB/TrEMBL
PhenoGen	Slc35a1	PhenoGen
PIRSF	UDP-gal_transpt	UniProtKB/TrEMBL
UniProt	A0A0G2JZH4	ENTREZGENE, UniProtKB/TrEMBL
	D3ZZ48	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-25	Slc35a1	solute carrier family 35 member A1	Slc35a1	solute carrier family 35 (CMP-sialic acid transporter), member A1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-11-20	Slc35a1	solute carrier family 35 (CMP-sialic acid transporter), member A1	Slc35a1	solute carrier family 35 (CMP-sialic acid transporter), member 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Slc35a1	solute carrier family 35 (CMP-sialic acid transporter), member 1	Slc35a1_predicted	solute carrier family 35 (CMP-sialic acid transporter), member 1 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Slc35a1_predicted	solute carrier family 35 (CMP-sialic acid transporter), member 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 Disease Annotations - ClinVar

Imported Disease Annotations - OMIM