Tspan13 (tetraspanin 13) - Rat Genome Database

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Gene: Tspan13 (tetraspanin 13) Mus musculus
Analyze
Symbol: Tspan13
Name: tetraspanin 13
RGD ID: 1551886
MGI Page MGI
Description: Enables calcium channel regulator activity. Acts upstream of or within regulation of calcium ion transmembrane transport. Located in plasma membrane. Is expressed in several structures, including cerebral cortex; ganglia; genitourinary system; gut; and lung. Orthologous to human TSPAN13 (tetraspanin 13).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1100001I23Rik; NET-6; tetraspanin-13; Tm4sf1; Tm4sf13; transmembrane 4 superfamily member 13; tspan-13
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391236,064,554 - 36,092,477 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1236,064,556 - 36,092,499 (-)EnsemblGRCm39 Ensembl
GRCm381236,014,555 - 36,042,478 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1236,014,557 - 36,042,500 (-)EnsemblGRCm38mm10GRCm38
MGSCv371236,741,142 - 36,769,065 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361236,524,821 - 36,552,744 (-)NCBIMGSCv36mm8
Celera1237,468,545 - 37,496,455 (-)NCBICelera
Cytogenetic Map12A3NCBI
cM Map1216.25NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
4-hydroxyphenyl retinamide  (EXP)
6-propyl-2-thiouracil  (ISO)
acetamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (EXP)
Benzo[k]fluoranthene  (EXP)
bisphenol A  (ISO)
cadmium dichloride  (ISO)
carbamazepine  (ISO)
carbon nanotube  (EXP)
choline  (EXP)
cisplatin  (ISO)
clobetasol  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (EXP)
Cuprizon  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
dibenz[a,h]anthracene  (EXP)
dibenzo[a,l]pyrene  (EXP)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (EXP)
diquat  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (EXP)
folic acid  (EXP)
furan  (ISO)
gentamycin  (ISO)
L-methionine  (EXP)
lead diacetate  (EXP)
methimazole  (ISO)
methylisothiazolinone  (ISO)
okadaic acid  (EXP)
ozone  (EXP)
paracetamol  (ISO)
phenobarbital  (EXP,ISO)
pirinixic acid  (EXP)
potassium chromate  (ISO)
pravastatin  (EXP,ISO)
progesterone  (EXP)
rotenone  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sulfadimethoxine  (ISO)
temozolomide  (ISO)
thioacetamide  (ISO)
titanium dioxide  (EXP)
topotecan  (ISO)
triadimefon  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
trovafloxacin  (EXP)
urethane  (ISO)
valproic acid  (EXP,ISO)
vincaleukoblastine  (ISO)
vinclozolin  (ISO)
zaragozic acid A  (EXP,ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14610273   PMID:15489334   PMID:16141072   PMID:16141073   PMID:17965585   PMID:18055048   PMID:18287559  
PMID:18291621   PMID:21267068   PMID:21677750   PMID:21873635   PMID:23648579  


Genomics

Comparative Map Data
Tspan13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391236,064,554 - 36,092,477 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1236,064,556 - 36,092,499 (-)EnsemblGRCm39 Ensembl
GRCm381236,014,555 - 36,042,478 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1236,014,557 - 36,042,500 (-)EnsemblGRCm38mm10GRCm38
MGSCv371236,741,142 - 36,769,065 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361236,524,821 - 36,552,744 (-)NCBIMGSCv36mm8
Celera1237,468,545 - 37,496,455 (-)NCBICelera
Cytogenetic Map12A3NCBI
cM Map1216.25NCBI
TSPAN13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38716,753,755 - 16,784,536 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl716,753,755 - 16,784,536 (+)EnsemblGRCh38hg38GRCh38
GRCh37716,793,380 - 16,824,161 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36716,759,876 - 16,790,686 (+)NCBINCBI36Build 36hg18NCBI36
Build 34716,566,626 - 16,597,399NCBI
Celera716,773,658 - 16,804,467 (+)NCBICelera
Cytogenetic Map7p21.1NCBI
HuRef716,680,509 - 16,711,316 (+)NCBIHuRef
CHM1_1716,793,073 - 16,823,884 (+)NCBICHM1_1
T2T-CHM13v2.0716,883,444 - 16,914,227 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2716,847,009 - 16,877,818 (+)NCBI
Tspan13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8658,466,051 - 58,492,804 (-)NCBIGRCr8
mRatBN7.2652,738,748 - 52,765,503 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl652,738,758 - 52,765,547 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx653,029,684 - 53,058,778 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0653,344,554 - 53,373,648 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0652,809,907 - 52,836,725 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0655,497,659 - 55,524,415 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl655,497,658 - 55,524,436 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0665,111,946 - 65,138,702 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4654,726,558 - 54,753,312 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1654,729,683 - 54,756,438 (-)NCBI
Celera651,885,317 - 51,912,070 (-)NCBICelera
Cytogenetic Map6q16NCBI
Tspan13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541019,973,227 - 19,979,923 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541019,971,216 - 19,979,923 (+)NCBIChiLan1.0ChiLan1.0
TSPAN13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2621,588,694 - 21,619,390 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1769,913,417 - 69,944,113 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0717,410,398 - 17,441,224 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1716,736,690 - 16,767,281 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl716,736,690 - 16,767,282 (+)Ensemblpanpan1.1panPan2
TSPAN13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11431,261,223 - 31,292,695 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1431,261,240 - 31,291,679 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1430,782,434 - 30,813,983 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01431,181,409 - 31,213,199 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1431,181,373 - 31,213,195 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11431,283,834 - 31,315,359 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01430,995,467 - 31,027,211 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01431,308,954 - 31,340,534 (+)NCBIUU_Cfam_GSD_1.0
Tspan13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511875,606,862 - 75,636,584 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365463,281,346 - 3,312,495 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365463,281,907 - 3,311,673 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TSPAN13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl985,996,641 - 86,033,349 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1985,996,381 - 86,033,358 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2994,864,120 - 94,873,878 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TSPAN13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12141,330,898 - 41,362,350 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604263,147,976 - 63,179,333 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tspan13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473913,445,697 - 13,482,063 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473913,445,541 - 13,479,067 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tspan13
1178 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1219
Count of miRNA genes:556
Interacting mature miRNAs:662
Transcripts:ENSMUST00000020896, ENSMUST00000128644, ENSMUST00000138393
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142234Tmc1m3_mTmc1 modifier 3 (mouse)Not determined12541844077031203Mouse
1301163Eae16_msusceptibility to experimental allergic encephalomyelitis 16 (mouse)Not determined12772315841723301Mouse
13208568Bmiq11_mbody mass index QTL 11 (mouse)12805000040049999Mouse
1301037Cd4ts5_mCD4 T cell subset 5 (mouse)Not determined12835244442352581Mouse
1301723Fcsa7_mfemoral cross-sectional area 7 (mouse)Not determined12949100443491112Mouse
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12955000084146774Mouse
14746972Manh72_mmandible shape 72 (mouse)121061528144615281Mouse
10401249Bglu15_mblood glucose level 15 (mouse)Not determined121062064244620809Mouse
13524843Ppiq8_mprepulse inhibition QTL 8 (mouse)121104319450945796Mouse
13207568Tcq14_mtotal cholesterol QTL 14 (mouse)121166000197176774Mouse
4141516slwr_mslowlearner (mouse)Not determined1239247546392614Mouse
13524839Ppiq10_mprepulse inhibition QTL 10 (mouse)121304319554945798Mouse
10043977Obq34_mobesity QTL 34 (mouse)Not determined121514733149147331Mouse
1558978Cplaq10_mcircadian period of locomotor activity 10 (mouse)Not determined121534102679040364Mouse
26884413Bzwq9_mbi-zygomatic width QTL 9, 10 week (mouse)121615000147746783Mouse
1301574Lmblgq5_mlimb length QTL 5 (mouse)Not determined121759644780956883Mouse
15039339Nmrs29_mNAFLD-associated magnetic resonance shift 29 (mouse)121782585251825852Mouse
10043848Hdlq90_mHDL QTL 90 (mouse)Not determined121783993951840081Mouse
1300870Ath18_matherosclerosis 18 (mouse)Not determined121825996652260067Mouse
12904956Edlmmq10_mextensor digitorum longus muscle mass QTL 10 (mouse)121973983353739833Mouse
1302172Skts5_mskin tumor susceptibility 5 (mouse)Not determined122214886656149016Mouse
1301989Hdlq18_mHDL QTL 18 (mouse)Not determined122916068563160884Mouse
1300636Gct2_mgranulosa cell tumorigenesis 2 (mouse)Not determined122916068563160884Mouse
4141843Moen3_mmodifier of engrailed QTL 3 (mouse)Not determined122980158463801733Mouse
14747008Mancz10_mmandible centroid size 10 (mouse)122986352263863522Mouse
10402492Dipa8_mdrug induced psychomotor activation 8 (mouse)Not determined123493387268934019Mouse
1300818Bbaa10_mB.burgdorferi-associated arthritis 10 (mouse)Not determined123509100465511019Mouse
12879483Asp1_maudiogenic seizure prone 1 (mouse)123528549646801733Mouse
4142002Tbqt3_mtibia bone quality traits 3 (mouse)Not determined1235285496109936243Mouse
14696690Rfq1_mrearing frequency QTL 1, males (mouse)123604999937049999Mouse

Markers in Region
RH133746  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381236,014,823 - 36,015,019UniSTSGRCm38
MGSCv371236,741,410 - 36,741,606UniSTSGRCm37
Celera1237,468,812 - 37,469,010UniSTS
Cytogenetic Map12B2UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000020896   ⟹   ENSMUSP00000020896
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1236,064,556 - 36,092,488 (-)Ensembl
GRCm38.p6 Ensembl1236,014,557 - 36,042,489 (-)Ensembl
RefSeq Acc Id: ENSMUST00000220641   ⟹   ENSMUSP00000152769
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1236,071,800 - 36,092,499 (-)Ensembl
GRCm38.p6 Ensembl1236,021,801 - 36,042,500 (-)Ensembl
RefSeq Acc Id: ENSMUST00000222584   ⟹   ENSMUSP00000152258
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1236,071,811 - 36,089,934 (-)Ensembl
GRCm38.p6 Ensembl1236,021,812 - 36,039,935 (-)Ensembl
RefSeq Acc Id: NM_025359   ⟹   NP_079635
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391236,064,554 - 36,092,477 (-)NCBI
GRCm381236,014,555 - 36,042,478 (-)ENTREZGENE
MGSCv371236,741,142 - 36,769,065 (-)RGD
Celera1237,468,545 - 37,496,455 (-)RGD
cM Map12 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_079635   ⟸   NM_025359
- UniProtKB: Q3TMS0 (UniProtKB/Swiss-Prot),   A7NSH9 (UniProtKB/Swiss-Prot),   Q8BTH3 (UniProtKB/Swiss-Prot),   Q9D8C2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000152258   ⟸   ENSMUST00000222584
RefSeq Acc Id: ENSMUSP00000020896   ⟸   ENSMUST00000020896
RefSeq Acc Id: ENSMUSP00000152769   ⟸   ENSMUST00000220641

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D8C2-F1-model_v2 AlphaFold Q9D8C2 1-204 view protein structure

Promoters
RGD ID:8678152
Promoter ID:EPDNEW_M17107
Type:initiation region
Name:Tspan13_1
Description:Mus musculus tetraspanin 13 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381236,042,487 - 36,042,547EPDNEW
RGD ID:6823497
Promoter ID:MM_KWN:11513
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lung,   Spleen
Transcripts:OTTMUST00000068284
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361236,766,341 - 36,767,452 (-)MPROMDB
RGD ID:6823493
Promoter ID:MM_KWN:11514
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   ES_Cell,   Liver,   Lung,   Spleen
Transcripts:ENSMUST00000020896
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361236,768,771 - 36,769,271 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1913359 AgrOrtholog
Ensembl Genes ENSMUSG00000020577 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000020896 ENTREZGENE
  ENSMUST00000020896.17 UniProtKB/Swiss-Prot
  ENSMUST00000220641.2 UniProtKB/TrEMBL
  ENSMUST00000222584.2 UniProtKB/TrEMBL
InterPro Tetraspanin UniProtKB/Swiss-Prot
  Tetraspanin/Peripherin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetraspanin_EC2_sf UniProtKB/Swiss-Prot
KEGG Report mmu:66109 UniProtKB/Swiss-Prot
MGD MGI:1913359 ENTREZGENE
NCBI Gene 66109 ENTREZGENE
PANTHER PTHR19282 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TETRASPANIN-13 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Tetraspanin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tspan13 PhenoGen
PIRSF Tetraspanin UniProtKB/Swiss-Prot
PRINTS TMFOUR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48652 UniProtKB/Swiss-Prot
UniProt A0A1Y7VJ37_MOUSE UniProtKB/TrEMBL
  A0A1Y7VK38_MOUSE UniProtKB/TrEMBL
  A7NSH9 ENTREZGENE
  Q3TMS0 ENTREZGENE
  Q8BTH3 ENTREZGENE
  Q9D8C2 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary A7NSH9 UniProtKB/Swiss-Prot
  Q3TMS0 UniProtKB/Swiss-Prot
  Q8BTH3 UniProtKB/Swiss-Prot