Tmeff2 (transmembrane protein with EGF-like and two follistatin-like domains 2) - Rat Genome Database
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Gene: Tmeff2 (transmembrane protein with EGF-like and two follistatin-like domains 2) Rattus norvegicus
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Symbol: Tmeff2
Name: transmembrane protein with EGF-like and two follistatin-like domains 2
RGD ID: 1308839
Description: Predicted to be involved in several processes, including negative regulation of cellular component organization; substrate adhesion-dependent cell spreading; and wound healing, spreading of cells. Predicted to localize to basement membrane and plasma membrane. Human ortholog(s) of this gene implicated in prostate cancer and urinary bladder cancer. Orthologous to human TMEFF2 (transmembrane protein with EGF like and two follistatin like domains 2); INTERACTS WITH 1-naphthyl isothiocyanate; bis(2-ethylhexyl) phthalate; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC363228; tomoregulin-2
Orthologs:
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0955,379,130 - 55,673,704 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl955,384,100 - 55,673,829 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0955,079,810 - 55,369,414 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4947,519,306 - 47,811,472 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1947,522,306 - 47,812,884 (-)NCBI
Celera948,081,045 - 48,369,704 (-)NCBICelera
Cytogenetic Map9q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:21814219   PMID:24632071   PMID:25931508  


Genomics

Comparative Map Data
Tmeff2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0955,379,130 - 55,673,704 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl955,384,100 - 55,673,829 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0955,079,810 - 55,369,414 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4947,519,306 - 47,811,472 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1947,522,306 - 47,812,884 (-)NCBI
Celera948,081,045 - 48,369,704 (-)NCBICelera
Cytogenetic Map9q22NCBI
TMEFF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2191,949,043 - 192,194,933 (-)EnsemblGRCh38hg38GRCh38
GRCh382191,948,300 - 192,194,933 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372192,770,615 - 193,059,645 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362192,522,988 - 192,767,889 (-)NCBINCBI36hg18NCBI36
Build 342192,640,254 - 192,885,150NCBI
Celera2186,409,789 - 186,655,054 (-)NCBI
Cytogenetic Map2q32.3NCBI
HuRef2184,672,895 - 184,920,068 (-)NCBIHuRef
CHM1_12192,819,740 - 193,065,795 (-)NCBICHM1_1
Tmeff2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39150,951,946 - 51,226,429 (+)NCBI
GRCm38150,900,683 - 51,187,270 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl150,900,647 - 51,187,270 (+)EnsemblGRCm38mm10GRCm38
MGSCv37150,984,367 - 51,244,114 (+)NCBIGRCm37mm9NCBIm37
MGSCv36150,872,068 - 51,131,815 (+)NCBImm8
Celera151,227,901 - 51,485,691 (+)NCBICelera
Cytogenetic Map1C1.1NCBI
Tmeff2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554037,121,834 - 7,354,908 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554037,122,019 - 7,353,769 (+)NCBIChiLan1.0ChiLan1.0
TMEFF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B197,157,426 - 197,397,439 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B197,158,689 - 197,396,254 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B79,242,825 - 79,489,113 (-)NCBIMhudiblu_PPA_v0panPan3
TMEFF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl372,414,440 - 2,635,431 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1372,414,208 - 2,635,283 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Tmeff2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365066,113,521 - 6,375,986 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEFF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1596,594,962 - 96,855,745 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11596,594,901 - 96,856,848 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215108,167,977 - 108,396,883 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TMEFF2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1077,490,095 - 77,735,849 (-)Ensembl
ChlSab1.11077,491,041 - 77,735,890 (-)NCBI
Tmeff2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248544,021,022 - 4,249,757 (+)NCBI

Position Markers
D9Mco73  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0955,627,251 - 55,627,498NCBIRnor6.0
Rnor_5.0955,322,961 - 55,323,208UniSTSRnor5.0
RGSC_v3.4947,764,110 - 47,764,357UniSTSRGSC3.4
Celera948,323,418 - 48,323,665UniSTS
Cytogenetic Map9q22UniSTS
BF415825  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0955,510,279 - 55,510,420NCBIRnor6.0
Rnor_5.0955,205,989 - 55,206,130UniSTSRnor5.0
RGSC_v3.4947,647,197 - 47,647,338UniSTSRGSC3.4
Celera948,206,626 - 48,206,767UniSTS
Cytogenetic Map9q22UniSTS
RH142566  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0955,603,998 - 55,604,171NCBIRnor6.0
Rnor_5.0955,299,708 - 55,299,881UniSTSRnor5.0
RGSC_v3.4947,740,907 - 47,741,080UniSTSRGSC3.4
Celera948,300,211 - 48,300,384UniSTS
Cytogenetic Map9q22UniSTS
AU047406  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0955,632,630 - 55,632,793NCBIRnor6.0
Rnor_5.0955,328,340 - 55,328,503UniSTSRnor5.0
RGSC_v3.4947,769,489 - 47,769,652UniSTSRGSC3.4
Celera948,328,797 - 48,328,966UniSTS
Cytogenetic Map9q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9105522293442944Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)91221677157216771Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)91242546357425463Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)91242546357425463Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92488509969885099Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92569234292741406Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)92569237370692373Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)92748603663264281Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)92748603666757620Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92748615588333183Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92907507983686404Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)929466970107878528Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93238513377385133Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93764235182642351Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93764235182642351Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)94126103490024806Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94126103498606834Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)941261034102531865Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94657976991579769Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94657976991579769Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94695242783686153Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94724896594124663Rat
6903937Bp356Blood pressure QTL 3560.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95268687457216771Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95417754299177542Rat
1598849Memor17Memory QTL 172.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)95488504176677636Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:296
Count of miRNA genes:179
Interacting mature miRNAs:223
Transcripts:ENSRNOT00000066231
Prediction methods: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 62 3
Low 31 10 2 8 11 12 19 37 9 8
Below cutoff 3 12 30 24 15 24 14 1 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108795 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07067626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07067627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07067628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07067629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059885 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059886 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059887 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059888 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059890 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059891 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059892 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059893 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059895 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01059897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000066231   ⟹   ENSRNOP00000063711
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl955,384,100 - 55,673,704 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081677   ⟹   ENSRNOP00000071191
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl955,385,695 - 55,673,829 (-)Ensembl
RefSeq Acc Id: NM_001108795   ⟹   NP_001102265
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0955,384,100 - 55,673,704 (-)NCBI
Rnor_5.0955,079,810 - 55,369,414 (-)NCBI
RGSC_v3.4947,519,306 - 47,811,472 (-)RGD
Celera948,081,045 - 48,369,704 (-)RGD
Sequence:
RefSeq Acc Id: XM_017596515   ⟹   XP_017452004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0955,379,130 - 55,673,701 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001102265 (Get FASTA)   NCBI Sequence Viewer  
  XP_017452004 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL99080 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001102265   ⟸   NM_001108795
- UniProtKB: D3ZRB9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452004   ⟸   XM_017596515
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JZU6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071191   ⟸   ENSRNOT00000081677
RefSeq Acc Id: ENSRNOP00000063711   ⟸   ENSRNOT00000066231
Protein Domains
EGF-like   Kazal-like

Transcriptome

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

Promoters
RGD ID:13696663
Promoter ID:EPDNEW_R7187
Type:single initiation site
Name:Tmeff2_1
Description:transmembrane protein with EGF-like and two follistatin-likedomains 2
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_6.0955,673,685 - 55,673,745EPDNEW

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)
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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

Database Acc Id Source(s)
AGR Gene RGD:1308839 AgrOrtholog
Ensembl Genes ENSRNOG00000016623 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063711 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071191 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066231 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000081677 ENTREZGENE, UniProtKB/TrEMBL
InterPro EGF-like_dom UniProtKB/TrEMBL
  Kazal_dom_sf UniProtKB/TrEMBL
  Prot_inh_Kazal UniProtKB/TrEMBL
KEGG Report rno:363228 UniProtKB/TrEMBL
NCBI Gene 363228 ENTREZGENE
Pfam Kazal_2 UniProtKB/TrEMBL
PhenoGen Tmeff2 PhenoGen
PROSITE EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  KAZAL_2 UniProtKB/TrEMBL
SMART KAZAL UniProtKB/TrEMBL
Superfamily-SCOP SSF100895 UniProtKB/TrEMBL
UniGene Rn.199984 ENTREZGENE
UniProt A0A0G2JZU6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZRB9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Tmeff2  transmembrane protein with EGF-like and two follistatin-like domains 2   Tmeff2_predicted  transmembrane protein with EGF-like and two follistatin-like domains 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Tmeff2_predicted  transmembrane protein with EGF-like and two follistatin-like domains 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED