Tspan13 (tetraspanin 13) - Rat Genome Database

Name: Tspan13
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Tspan13 (tetraspanin 13) Chinchilla lanigera

Analyze

Symbol:

Tspan13

Name:

tetraspanin 13

RGD ID:

8742476

Description:

ENCODES a protein that exhibits calcium channel regulator activity (ortholog); INVOLVED IN regulation of calcium ion transmembrane transport (ortholog); ASSOCIATED WITH genetic disease (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN plasma membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

tetraspanin-13

RGD Orthologs

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):	TSPAN13 (tetraspanin 13)	NCBI	Ortholog
Mus musculus (house mouse):	Tspan13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Tspan13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TSPAN13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TSPAN13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tspan13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TSPAN13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TSPAN13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tspan13 (tetraspanin 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955410	19,973,227 - 19,979,923 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955410	19,971,216 - 19,979,923 (+)	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

genetic disease (ISO)

pleomorphic xanthoastrocytoma (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

regulation of calcium ion transmembrane transport (ISO)

Cellular Component

plasma membrane (ISO)

Molecular Function

calcium channel regulator activity (ISO)

protein binding (ISO)

References

References - curated

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

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Tspan13
(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_004955410	19,973,227 - 19,979,923 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955410	19,971,216 - 19,979,923 (+)	NCBI	ChiLan1.0	ChiLan1.0

TSPAN13
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	16,753,755 - 16,784,536 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	16,753,755 - 16,784,536 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	16,793,380 - 16,824,161 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	16,759,876 - 16,790,686 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	16,566,626 - 16,597,399	NCBI
Celera	7	16,773,658 - 16,804,467 (+)	NCBI		Celera
Cytogenetic Map	7	p21.1	NCBI
HuRef	7	16,680,509 - 16,711,316 (+)	NCBI		HuRef
CHM1_1	7	16,793,073 - 16,823,884 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	16,883,444 - 16,914,227 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	16,847,009 - 16,877,818 (+)	NCBI

Tspan13
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	36,064,554 - 36,092,477 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	36,064,556 - 36,092,499 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	36,014,555 - 36,042,478 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	36,014,557 - 36,042,500 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	36,741,142 - 36,769,065 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	36,524,821 - 36,552,744 (-)	NCBI		MGSCv36	mm8
Celera	12	37,468,545 - 37,496,455 (-)	NCBI		Celera
Cytogenetic Map	12	A3	NCBI
cM Map	12	16.25	NCBI

Tspan13
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	58,466,051 - 58,492,804 (-)	NCBI		GRCr8
mRatBN7.2	6	52,738,748 - 52,765,503 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	52,738,758 - 52,765,547 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	53,029,684 - 53,058,778 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	53,344,554 - 53,373,648 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	52,809,907 - 52,836,725 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	55,497,659 - 55,524,415 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	55,497,658 - 55,524,436 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	65,111,946 - 65,138,702 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	54,726,558 - 54,753,312 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	54,729,683 - 54,756,438 (-)	NCBI
Celera	6	51,885,317 - 51,912,070 (-)	NCBI		Celera
Cytogenetic Map	6	q16	NCBI

TSPAN13
(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	6	21,588,694 - 21,619,390 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	69,913,417 - 69,944,113 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	17,410,398 - 17,441,224 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	16,736,690 - 16,767,281 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	16,736,690 - 16,767,282 (+)	Ensembl	panpan1.1		panPan2

TSPAN13
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	14	31,261,223 - 31,292,695 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	14	31,261,240 - 31,291,679 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	14	30,782,434 - 30,813,983 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	14	31,181,409 - 31,213,199 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	14	31,181,373 - 31,213,195 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	14	31,283,834 - 31,315,359 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	14	30,995,467 - 31,027,211 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	14	31,308,954 - 31,340,534 (+)	NCBI		UU_Cfam_GSD_1.0

Tspan13
(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_024405118	75,606,862 - 75,636,584 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936546	3,281,346 - 3,312,495 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936546	3,281,907 - 3,311,673 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TSPAN13
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	9	85,996,641 - 86,033,349 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	85,996,381 - 86,033,358 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	94,864,120 - 94,873,878 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TSPAN13
(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	21	41,330,898 - 41,362,350 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666042	63,147,976 - 63,179,333 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tspan13
(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_004624739	13,445,697 - 13,482,063 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624739	13,445,541 - 13,479,067 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_013510494	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01011039	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBBH01095569	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000018568 ⟹ ENSCLAP00000018388

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955410	19,973,227 - 19,979,923 (+)	Ensembl

RefSeq Acc Id:

XM_013510494 ⟹ XP_013365948

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955410	19,971,216 - 19,979,923 (+)	NCBI

Sequence:

show sequence

ATGCTTGAAGATTTCTATCATGTTCTCGTGACAGATAAATACAGACACAAACGACCGCTATTTC
CTATGGGTTGCGTTTCTCTGGAGACCCCGGCCTGCGCCATCCAGCCTCTCTGCCATGTGCCGGT
GTGGCCTTCAGCACAAGGCCCCGAGGCGCAGTGGCCGATGTTGCTTCAGGTCTCCATCCTGGAC
AGACAGGCATGGAAACAGTGCGAAGGTGATGCTGGGAACAGTACAACCTCATTCAAAGAACACA
GACTGCTGAGAGCGGAGGATTCATTCAGTTGTTCGGGCTTTGAAGGAAAAGATAATTTCCATTT
GGTTAGTCTGTTGCTGATCGGGATTGCTGCTTGGGGCATCGGCTTCGGGCTGATTTCCAGTCTC
CGAGTGGTGGGCGTGGTCATCGCAGTGGGTATCTTCCTGTTCCTGATCGCGCTGGTGGGGCTGA
TCGGTGCTGTGAAACACCATCAAGTGTTGCTGTTCTTCTATATGATTATTCTCTTACTTGTATT
TATTGTTCAGTTTTCTGTGTCTTGTGCTTGCTTAGCCCTCAATCAGGAGCAACAGAGTCAGCTT
CTGGAGGTTGGTTGGAACAACACGGCAGGTGCTCGAAATGACATCCAGAGAAATTTAGATTGCT
GTGGATTCCGAAGTTTTAACCCAAATGACACCTGCCTGGCTAGCTGTGTGAAAGATGGCCATCT
GTGCCCACCGTGTGCTCCGATAATAGGACGATATGCTGGAGAGGTTTTGAGATTTGTCGGTGGC
ATCGGCCTCTTCTTCAGTTTCACAGAGATCCTGGGTGTTTGGCTGACCTACAGGTACAGGAACC
AGAAAGACCCTCGTGCTAACCCTAGTGCATTCCTTTGATGAACAAACAAGAAGAATCCTTCACG
TCCGGATTTGGTCCATCTTCTCTAGTTTTAAGTTAAGCTAATTTGCCCATTTAATCAAGGAAAC
AGTGTCTGAAAAATTGCATTATCAACAGTGGAAATATATATTTTTATTCTTATTTTTCTCTAAA
TGTTTTTCTTCCATGGCTGAAAGAAAAAGGAAACCCAAGGTGTCTTCTGACCCTCAGTGGTACC
TGTAACCTACTGTACTCACAGTGTTCGGCACTGTCCACTGTGGCCTTCCTTAGCATTTTTCTCT
GCAGAAATCCTTTGTATGACACTACTGTGTTGGCCATATTGTGAAACTACATATACATTTCACT
GGAATAATTGTGTGTAGCACTGTACTGTGTAGATAGTTCCCACTGGAAAGAGTTAATGTCTGTC
CCTAAGGACAAGACAGTAAGAGCTTCTATAATGTTAAATTCAGTAAGGGAAATCTAAACTCCCA
ATATTTTTTGTCTTTTAGGAAAGATGTGTTGTGGTGAAAAGTGTTAATATGAAAGTGATAATTT
AGTTCTAGTAGCCTTTCATGATTACACCAATGTATTGTAGAAATAGCTATGTGTTTAGGAGATT
GTGGTTTTGTCTTTGACTTTCACAGGTAAGTGCAAAGGAGAAGTGATCTCATGAAGTGTTCTAA
TGTATAAGCATTTATCTTCAGCTTTCAAAATGGAATGACTTTCAGAAAGTATATATAATCTCGA
TAGTCTTTTTTAATAATTTGAACTCCAAAAGACAGCATTTTAAAACAATTTACTATTCATGTGT
TGGCCCATGTAACAAGAAGATATTTGATGGTCTTAAAAATTGTTAAATAACTTTTTCATGAAAT
TTCTCTGTATTGTAACAACAACTTGTCAAATTCAAGCATATTTGACTGTGATAACCCCCATAAT
TTGAAATTGAAATCACGTTGTGGTTCTGTATATTAAGTTAAAAAAATTAAAAGTGGAAACCTTT
CTTTGTGCATCCATGTTTGAATTAAAAGAAGGTAATGGAAGAATTGA

hide sequence

Protein Sequences


Protein RefSeqs	XP_013365948	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000018388.1

RefSeq Acc Id:

XP_013365948 ⟸ XM_013510494

- Sequence:

show sequence

MLEDFYHVLVTDKYRHKRPLFPMGCVSLETPACAIQPLCHVPVWPSAQGPEAQWPMLLQVSILD
RQAWKQCEGDAGNSTTSFKEHRLLRAEDSFSCSGFEGKDNFHLVSLLLIGIAAWGIGFGLISSL
RVVGVVIAVGIFLFLIALVGLIGAVKHHQVLLFFYMIILLLVFIVQFSVSCACLALNQEQQSQL
LEVGWNNTAGARNDIQRNLDCCGFRSFNPNDTCLASCVKDGHLCPPCAPIIGRYAGEVLRFVGG
IGLFFSFTEILGVWLTYRYRNQKDPRANPSAFL

hide sequence

RefSeq Acc Id:

ENSCLAP00000018388 ⟸ ENSCLAT00000018568

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000012606	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000018568.1	UniProtKB/TrEMBL
InterPro	Tetraspanin/Peripherin	UniProtKB/TrEMBL
NCBI Gene	Tspan13	ENTREZGENE
PANTHER	PTHR19282	UniProtKB/TrEMBL
	TETRASPANIN-13	UniProtKB/TrEMBL
Pfam	Tetraspanin	UniProtKB/TrEMBL
PRINTS	TMFOUR	UniProtKB/TrEMBL
UniProt	A0A8C2VNX3_CHILA	UniProtKB/TrEMBL

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)

Send us a Message

Imported Disease Annotations - ClinVar