Tspan7 (tetraspanin 7) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Tspan7 (tetraspanin 7) Rattus norvegicus
Analyze
Symbol: Tspan7
Name: tetraspanin 7
RGD ID: 1589725
Description: Predicted to be located in plasma membrane. Predicted to be integral component of plasma membrane. Human ortholog(s) of this gene implicated in non-syndromic X-linked intellectual disability 58. Orthologous to human TSPAN7 (tetraspanin 7); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; aldehydo-D-glucose.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: A15; DXS1692E; MXS1; neuroprotective protein 5; TALLA-1; tetraspanin-7; Tm4sf2; Tm4sf2_mapped; transmembrane 4 superfamily member 2; transmembrane 4 superfamily member 2 (mapped); Transmembrane 4, superfamily member 2 (cell surface glycoprotein A15)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X12,208,783 - 12,306,160 (-)NCBImRatBN7.2
Rnor_6.0 EnsemblX13,261,558 - 13,279,099 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X13,261,551 - 13,282,886 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X14,051,176 - 14,071,673 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X24,362,332 - 24,383,176 (-)NCBIRGSC3.4rn4RGSC3.4
CeleraX12,822,161 - 12,919,359 (-)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2-methylcholine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
aldehydo-D-glucose  (EXP)
all-trans-retinoic acid  (ISO)
antimony(0)  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
butanal  (ISO)
cadmium sulfate  (ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
D-glucose  (EXP)
dibutyl phthalate  (EXP)
dioxygen  (EXP)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
folic acid  (ISO)
glucose  (EXP)
hydrogen peroxide  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lead(II) chloride  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
nickel sulfate  (ISO)
nimesulide  (EXP)
ozone  (ISO)
paracetamol  (ISO)
potassium dichromate  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
titanium dioxide  (ISO)
triclosan  (ISO)
triptonide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:21124846  


Genomics

Comparative Map Data
Tspan7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X12,208,783 - 12,306,160 (-)NCBImRatBN7.2
Rnor_6.0 EnsemblX13,261,558 - 13,279,099 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X13,261,551 - 13,282,886 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X14,051,176 - 14,071,673 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X24,362,332 - 24,383,176 (-)NCBIRGSC3.4rn4RGSC3.4
CeleraX12,822,161 - 12,919,359 (-)NCBICelera
Cytogenetic MapXq12NCBI
TSPAN7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX38,561,542 - 38,688,920 (+)EnsemblGRCh38hg38GRCh38
GRCh38X38,561,542 - 38,688,918 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X38,420,795 - 38,548,172 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X38,305,683 - 38,433,116 (+)NCBINCBI36hg18NCBI36
Build 34X38,176,955 - 38,304,388NCBI
CeleraX42,558,371 - 42,685,804 (+)NCBI
Cytogenetic MapXp11.4NCBI
HuRefX36,165,283 - 36,292,541 (+)NCBIHuRef
CHM1_1X38,451,822 - 38,579,246 (+)NCBICHM1_1
Tspan7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X10,351,355 - 10,462,843 (+)NCBIGRCm39mm39
GRCm39 EnsemblX10,351,397 - 10,462,844 (+)Ensembl
GRCm38X10,485,116 - 10,596,604 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX10,485,158 - 10,596,605 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X10,062,242 - 10,173,730 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X9,642,075 - 9,753,563 (+)NCBImm8
CeleraX8,190,531 - 8,300,146 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
Tspan7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495556675,576 - 203,512 (+)NCBIChiLan1.0ChiLan1.0
TSPAN7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X38,818,523 - 38,841,328 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX38,714,162 - 38,841,328 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X31,006,297 - 31,133,856 (+)NCBIMhudiblu_PPA_v0panPan3
TSPAN7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X33,336,821 - 33,465,097 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX33,336,846 - 33,464,163 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX20,686,033 - 20,814,156 (+)NCBI
ROS_Cfam_1.0X33,386,892 - 33,515,069 (+)NCBI
UMICH_Zoey_3.1X33,465,894 - 33,593,915 (+)NCBI
UNSW_CanFamBas_1.0X33,437,798 - 33,565,917 (+)NCBI
UU_Cfam_GSD_1.0X33,479,723 - 33,608,321 (+)NCBI
Tspan7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X25,575,743 - 25,698,159 (+)NCBI
SpeTri2.0NW_0049365025,416,454 - 5,538,870 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TSPAN7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X34,522,899 - 34,660,216 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X38,595,834 - 38,624,148 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TSPAN7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X35,711,603 - 35,829,385 (+)NCBI
ChlSab1.1 EnsemblX35,711,601 - 35,829,681 (+)Ensembl
Vero_WHO_p1.0NW_023666076896,882 - 1,015,532 (+)NCBI
Tspan7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476216,767,493 - 16,911,713 (-)NCBI

Position Markers
RH140128  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X12,208,897 - 12,209,097 (+)MAPPERmRatBN7.2
Rnor_6.0X13,261,666 - 13,261,865NCBIRnor6.0
Rnor_5.0X14,051,291 - 14,051,490UniSTSRnor5.0
RGSC_v3.4X24,362,447 - 24,362,646UniSTSRGSC3.4
CeleraX12,822,276 - 12,822,475UniSTS
RH 3.4 MapX99.4UniSTS
Cytogenetic MapXq13UniSTS
RH128988  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X12,208,805 - 12,208,970 (+)MAPPERmRatBN7.2
Rnor_6.0X13,261,574 - 13,261,738NCBIRnor6.0
Rnor_5.0X14,051,199 - 14,051,363UniSTSRnor5.0
RGSC_v3.4X24,362,355 - 24,362,519UniSTSRGSC3.4
CeleraX12,822,184 - 12,822,348UniSTS
RH 3.4 MapX87.1UniSTS
Cytogenetic MapXq13UniSTS
BE097059  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X12,239,413 - 12,239,580 (+)MAPPERmRatBN7.2
Rnor_6.0X13,292,690 - 13,292,856NCBIRnor6.0
Rnor_5.0X14,081,477 - 14,081,643UniSTSRnor5.0
RGSC_v3.4X24,392,980 - 24,393,146UniSTSRGSC3.4
CeleraX12,852,731 - 12,852,897UniSTS
RH 3.4 MapX95.9UniSTS
Cytogenetic MapXq13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X144092703Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X166245321592783Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X166260933443848Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X183816624331837Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X428214049282140Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X595407850954078Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:747
Count of miRNA genes:256
Interacting mature miRNAs:316
Transcripts:ENSRNOT00000051898, ENSRNOT00000060857
Prediction methods:Microtar, Miranda, Pita, 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.


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 11
Medium 3 43 53 41 15 41 8 11 63 35 34 11 8
Low 4 4 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000051898   ⟹   ENSRNOP00000048893
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX13,262,791 - 13,279,082 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000060857   ⟹   ENSRNOP00000057580
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX13,261,558 - 13,279,099 (-)Ensembl
RefSeq Acc Id: NM_001108815   ⟹   NP_001102285
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X12,208,783 - 12,306,101 (-)NCBI
Rnor_6.0X13,261,551 - 13,282,886 (-)NCBI
Rnor_5.0X14,051,176 - 14,071,673 (-)NCBI
RGSC_v3.4X24,362,332 - 24,383,176 (-)RGD
CeleraX12,822,161 - 12,919,359 (-)RGD
Sequence:
RefSeq Acc Id: XM_039099868   ⟹   XP_038955796
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X12,208,783 - 12,306,160 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001102285 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955796 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58793 (Get FASTA)   NCBI Sequence Viewer  
  ABX10436 (Get FASTA)   NCBI Sequence Viewer  
  EDL97621 (Get FASTA)   NCBI Sequence Viewer  
  EDL97622 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001102285   ⟸   NM_001108815
- Sequence:
RefSeq Acc Id: ENSRNOP00000057580   ⟸   ENSRNOT00000060857
RefSeq Acc Id: ENSRNOP00000048893   ⟸   ENSRNOT00000051898
RefSeq Acc Id: XP_038955796   ⟸   XM_039099868
- Peptide Label: isoform X1

Transcriptome

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

Promoters
RGD ID:13701716
Promoter ID:EPDNEW_R12240
Type:single initiation site
Name:Tspan7_1
Description:tetraspanin 7
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X13,279,016 - 13,279,076EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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

Database Acc Id Source(s)
AGR Gene RGD:1589725 AgrOrtholog
Ensembl Genes ENSRNOG00000003229 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000048893 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000057580 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051898 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000060857 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1450.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7122763 IMAGE-MGC_LOAD
  IMAGE:7312115 IMAGE-MGC_LOAD
InterPro Tetraspanin UniProtKB/TrEMBL
  Tetraspanin_CS UniProtKB/TrEMBL
  Tetraspanin_EC2 UniProtKB/TrEMBL
  Tetraspanin_subgr UniProtKB/TrEMBL
MGC_CLONE MGC:188170 IMAGE-MGC_LOAD
  MGC:95030 IMAGE-MGC_LOAD
NCBI Gene 363447 ENTREZGENE
Pfam Tetraspannin UniProtKB/TrEMBL
PhenoGen Tspan7 PhenoGen
PIRSF Tetraspanin UniProtKB/TrEMBL
PRINTS TMFOUR UniProtKB/TrEMBL
PROSITE TM4_1 UniProtKB/TrEMBL
Superfamily-SCOP Tetraspanin UniProtKB/TrEMBL
UniProt B0BNE7_RAT UniProtKB/TrEMBL
  F1M8Y2_RAT UniProtKB/TrEMBL
  F1M9I6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Tspan7  tetraspanin 7  Tm4sf2  transmembrane 4 superfamily member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-13   transmembrane 4 superfamily member 2  Tm4sf2  transmembrane 4 superfamily member 2 (mapped)  Name updated 737654 APPROVED
2007-04-12 Tm4sf2  transmembrane 4 superfamily member 2 (mapped)  Tm4sf2_mapped  transmembrane 4 superfamily member 2 (mapped)  Data Merged 737654 APPROVED
2006-11-19 Tm4sf2  transmembrane 4 superfamily member 2 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Tm4sf2_mapped  transmembrane 4 superfamily member 2 (mapped)  Tm4sf2  transmembrane 4 superfamily member 2  Symbol and Name updated 1556543 APPROVED
2003-04-09 Tm4sf2  transmembrane 4 superfamily member 2    Transmembrane 4, superfamily member 2 (cell surface glycoprotein A15)  Name updated 629478 APPROVED
2002-06-10 Tm4sf2  Transmembrane 4, superfamily member 2 (cell surface glycoprotein A15)      Symbol and Name status set to approved 70586 APPROVED