Slc52a3 (solute carrier family 52 member 3)

Gene: Slc52a3 (solute carrier family 52 member 3) Chinchilla lanigera

Analyze

Symbol:

Slc52a3

Name:

solute carrier family 52 member 3

RGD ID:

8761287

Description:

ENCODES a protein that exhibits riboflavin transmembrane transporter activity (ortholog); INVOLVED IN cellular response to heat (ortholog); flavin adenine dinucleotide biosynthetic process (ortholog); riboflavin metabolic process (ortholog); ASSOCIATED WITH Auditory Neuropathy (ortholog); Brown-Vialetto-Van Laere syndrome (ortholog); Brown-Vialetto-Van Laere syndrome 1 (ortholog); FOUND IN cytoplasm (ortholog); nucleus (ortholog); plasma membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

solute carrier family 52 (riboflavin transporter), member 3; solute carrier family 52, riboflavin transporter, member 3

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

NCBI Annotation Information:

Annotation category: partial on reference assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955596	47,108 - 60,239 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955596	48,463 - 60,239 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Auditory Neuropathy (ISO)

Brown-Vialetto-Van Laere syndrome (ISO)

Brown-Vialetto-Van Laere syndrome 1 (ISO)

esophagus squamous cell carcinoma (ISO)

Fazio-Londe disease (ISO)

genetic disease (ISO)

motor neuron disease (ISO)

Polyglucosan Body Myopathy 1 with or without Immunodeficiency (ISO)

pre-malignant neoplasm (ISO)

progressive bulbar palsy (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to heat (ISO)

flavin adenine dinucleotide biosynthetic process (ISO)

riboflavin metabolic process (ISO)

riboflavin transport (ISO)

sensory perception of sound (ISO)

Cellular Component

cytoplasm (ISO)

nucleus (ISO)

plasma membrane (ISO)

Molecular Function

protein binding (ISO)

riboflavin transmembrane transporter activity (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species
2.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Slc52a3
(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_004955596	47,108 - 60,239 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955596	48,463 - 60,239 (-)	NCBI	ChiLan1.0	ChiLan1.0

SLC52A3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	20	760,080 - 780,033 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	20	760,080 - 776,015 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	20	740,724 - 756,628 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	20	688,724 - 697,228 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	20	688,724 - 697,131	NCBI
Celera	20	835,489 - 844,006 (-)	NCBI		Celera
Cytogenetic Map	20	p13	NCBI
HuRef	20	692,137 - 700,684 (-)	NCBI		HuRef
CHM1_1	20	740,737 - 749,241 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	20	804,408 - 824,432 (-)	NCBI		T2T-CHM13v2.0

Slc52a3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	151,838,431 - 151,851,178 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	151,838,431 - 151,851,178 (+)	Ensembl		GRCm39 Ensembl
GRCm38	2	151,996,511 - 152,009,258 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	151,996,511 - 152,009,258 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	151,822,247 - 151,834,994 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	151,688,069 - 151,700,697 (+)	NCBI		MGSCv36	mm8
Celera	2	157,812,297 - 157,825,037 (+)	NCBI		Celera
Cytogenetic Map	2	G3	NCBI
cM Map	2	74.83	NCBI

Slc52a3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	3	160,959,233 - 160,976,170 (+)	NCBI		GRCr8
mRatBN7.2	3	140,498,924 - 140,515,845 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	140,509,473 - 140,514,096 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	3	144,413,961 - 144,418,585 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	3	152,997,774 - 153,002,398 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	3	150,739,621 - 150,744,225 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	3	147,503,266 - 147,517,935 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	147,511,406 - 147,516,455 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	153,853,145 - 153,866,321 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	142,360,661 - 142,365,285 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	3	142,266,232 - 142,288,334 (+)	NCBI
Celera	3	139,263,935 - 139,268,559 (+)	NCBI		Celera
Cytogenetic Map	3	q41	NCBI

SLC52A3
(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	21	1,850,120 - 1,866,219 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	20	1,846,948 - 1,863,047 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	20	970,380 - 986,368 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	20	739,556 - 755,486 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	20	739,556 - 755,486 (-)	Ensembl	panpan1.1		panPan2

SLC52A3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	24	20,127,527 - 20,141,070 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	24	20,127,520 - 20,156,003 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	24	19,780,739 - 19,794,279 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	24	20,818,447 - 20,831,867 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	24	20,818,436 - 20,830,516 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	24	20,094,778 - 20,108,312 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	24	20,200,464 - 20,214,008 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	24	20,631,248 - 20,644,641 (+)	NCBI		UU_Cfam_GSD_1.0

Slc52a3
(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_024408640	169,340,088 - 169,345,973 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936485	17,771,797 - 17,777,637 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC52A3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	17	34,459,359 - 34,481,026 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	17	34,459,291 - 34,481,022 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	17	39,144,206 - 39,161,184 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC52A3
(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	2	55,744,934 - 55,760,957 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	2	55,752,837 - 55,761,120 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666078	8,196,338 - 8,204,817 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Slc52a3
(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_004624741	2,097,723 - 2,107,127 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624741	2,093,190 - 2,106,918 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005414682	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01076504	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCE01171650	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCQ01179604	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000000410 ⟹ ENSCLAP00000000382

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955596	47,108 - 60,239 (-)	Ensembl

RefSeq Acc Id:

XM_005414682 ⟹ XP_005414739

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955596	48,463 - 60,239 (-)	NCBI

Sequence:

show sequence

CGGGCCCGCTCGCGCCGGGGCTGGGACGCTCAGCTCCGGGCGCGCGGCGCCCTCCTGTCTGCGC
CTCGGGGCTCAGCCGTCCACGACCCCGACGCACAGCGCCGGGTCCCGGGGCCCCGCGAGGACTG
GTGTCGCCGGCTCCTCCCAGCCGGCCCGGGACCCCGCCTCCGCCCTCCCTCCCGCCGGGGCGGG
GACAGGTGCACGCTCCCGGGCGCGCTCCCGCAGAGCCGGGCCGGACCCGAGCGCCCCCCGCAGG
CTGACCCTGGGGACAGCAGCCCTCCACCTGCAGACGCCGCCATGGCCTTCCTGGTCCATCTGTT
GGTCTGCGTCTTTGGGATGGGCTCCTGGGTGGCCATCAACGGGCTGTGGGTGGAGCTGCCCCTG
CTGGTGATGGAGCTTCCCGAGGGCTGGCACCTGCCCTCCTACCTCACGGTGGTCATCCAGGTGG
CCAACGTCGGGCCCCTGCTGGTCACCTTGCTGCACCACTTCCGGCCTGGCTGCCTCTCTGAGGT
CCCCATAATCTTTACCATCCTGACCGTGGGCACCGTCACCTGTGTCCTCTTCGCCTTCGTCTGG
AACATAACCTCCAGGGTGCTGAGGGGCCACCACAGCATCGCCTTTGTCGTCCTCACCTTCTTCC
TGGCTCTGGTGGACTGCACCTCCTCTGTCACCTTCCTGCCCTTCATGAGCCGGCTGCCCTCCTA
CTACCTCACCACCTTCTTCGTGGGCGAAGGATTCAGTGGCCTCCTGCCTGCGCTGGTGGCTCTG
GCCCAGGGCTCGGGTATCACCACCTGTGTCAATGTCACAGAGCCATTGGATGCCACCTCGAGCC
CTATGACCACCAGGGAGACCCATGGCACACAGGGACCCGGCAGCCCCACAGTGTGGGCCCCTGC
TGGCCGCCTGGAGAGCCACTACCTCCCTGCACGCTTCTCGCCTCTGGTCTTCTTCCTGCTGCTG
GCCGGCATGATGGGCTGCTGCCTGCTGGCCTTCTTCCTGCTCCAGCGGCGGTCCCGGGCCCAGC
AGGGCTCTATCGAAGATCTCCTCCAGTCCCAGGTCACCCTCCACTCCATCCGGCCACGTGAGGA
GAAAGATACAGGCCCCCTGGACCCGGCAGAGAGCAGCAAGGGCAAGGGGCACCTGGAGGAGAAG
GTGGCCGCCCTGCGCCCCGCACAGCTGGCCTTCATCTACACCCTGGTGGCCTTCGTGAATGCAC
TCACCAATGGCGTGCTGCCCTCCGTGCAGACCTATTCCTGCCTGCCCTATGGGCCTGTCGCCTA
CCACCTGTCTGCCACCCTCAGCTCTGTGGCCAGCCCGCTCACCTGCTTCCTCTCCATATTTCTG
CCTAGCAGGTCTCTGCCATTTCTGGGGGTCATCACCGTGCTGGGGACCGGCTTTGGGGCCTACA
ACATGGCCATGGCTGCGATGAGCCCCTGCCCCCTCCTCCAGGGCCACTGGGGGGGAGAAGTTCT
CATTGTGATGTCCTGGGTGCTGTTCTCAGCCTGTCTCAGCTACATCAAGGTCATGCTGGGTGTG
ATCTTGCGCGACCGGAGCCGCAGTGCTCTCGTGTGGTGCGGGGCGGCGGTGCAGCTGGGCTCGC
TGGTCGGGGCGCTGCTCATGTTCCCGCTGGTCAACGTGCTGAGGCTCTTCGTGTCCGCGGACTT
CTGCAACCTGGACTGCTCTGCCTAGGAGGCCCCAGGGCAATGCCTGGAAGCGAGGGAGAGGCAA
GGGGGTGGTCAAGATCACAGCCCCGAGGTAGGGAGCAGCAGGACAGAGCTCAAGCCTCAGGACC
ATGAACCGTACCAGGCTGGATGGGGGCCTTGGAAGCAGTTGTGGGGGGCAGTATTGTTATTTTG
TTTTACTTTTTTAAAAATAAAGACATTGTTGCTTTTACACTCA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005414739	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000000382
	ENSCLAP00000000382.1

RefSeq Acc Id:

XP_005414739 ⟸ XM_005414682

- UniProtKB:

A0A8C2YI52 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAFLVHLLVCVFGMGSWVAINGLWVELPLLVMELPEGWHLPSYLTVVIQVANVGPLLVTLLHHF
RPGCLSEVPIIFTILTVGTVTCVLFAFVWNITSRVLRGHHSIAFVVLTFFLALVDCTSSVTFLP
FMSRLPSYYLTTFFVGEGFSGLLPALVALAQGSGITTCVNVTEPLDATSSPMTTRETHGTQGPG
SPTVWAPAGRLESHYLPARFSPLVFFLLLAGMMGCCLLAFFLLQRRSRAQQGSIEDLLQSQVTL
HSIRPREEKDTGPLDPAESSKGKGHLEEKVAALRPAQLAFIYTLVAFVNALTNGVLPSVQTYSC
LPYGPVAYHLSATLSSVASPLTCFLSIFLPSRSLPFLGVITVLGTGFGAYNMAMAAMSPCPLLQ
GHWGGEVLIVMSWVLFSACLSYIKVMLGVILRDRSRSALVWCGAAVQLGSLVGALLMFPLVNVL
RLFVSADFCNLDCSA

hide sequence

RefSeq Acc Id:

ENSCLAP00000000382 ⟸ ENSCLAT00000000410

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000000322	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000000410	ENTREZGENE
	ENSCLAT00000000410.1	UniProtKB/TrEMBL
InterPro	Riboflavin_transptr	UniProtKB/TrEMBL
NCBI Gene	Slc52a3	ENTREZGENE
PANTHER	PTHR12929	UniProtKB/TrEMBL
	SOLUTE CARRIER FAMILY 52, RIBOFLAVIN TRANSPORTER, MEMBER 3	UniProtKB/TrEMBL
Pfam	DUF1011	UniProtKB/TrEMBL
UniProt	A0A8C2YI52	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-08-03	Slc52a3	solute carrier family 52 member 3		solute carrier family 52 (riboflavin transporter), member 3	Symbol and/or name change	5135510	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

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Imported Disease Annotations - CTD

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