Tmem175 (transmembrane protein 175) - Rat Genome Database
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Gene: Tmem175 (transmembrane protein 175) Rattus norvegicus
Analyze
Symbol: Tmem175
Name: transmembrane protein 175
RGD ID: 1309712
Description: Predicted to have potassium ion leak channel activity. Predicted to be involved in phagosome-lysosome fusion; potassium ion transmembrane transport; and regulation of lysosomal lumen pH. Predicted to localize to endosome and lysosome. Orthologous to human TMEM175 (transmembrane protein 175); INTERACTS WITH acrylamide; bisphenol A; 1,2-dimethylhydrazine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: endosomal/lysomomal potassium channel TMEM175; endosomal/lysosomal potassium channel TMEM175; LOC305623; RGD1309712; similar to RIKEN cDNA 3010001K23 gene
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
mRatBN7.2141,073,410 - 1,089,764 (-)NCBI
Rnor_6.0 Ensembl142,083,712 - 2,100,005 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0142,083,745 - 2,100,006 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0142,078,799 - 2,095,561 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4141,614,529 - 1,630,636 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1141,614,529 - 1,630,636 (-)NCBI
Celera141,112,847 - 1,128,959 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:15489334   PMID:17897319   PMID:26317472   PMID:28193887   PMID:28723891  


Genomics

Comparative Map Data
Tmem175
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2141,073,410 - 1,089,764 (-)NCBI
Rnor_6.0 Ensembl142,083,712 - 2,100,005 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0142,083,745 - 2,100,006 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0142,078,799 - 2,095,561 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4141,614,529 - 1,630,636 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1141,614,529 - 1,630,636 (-)NCBI
Celera141,112,847 - 1,128,959 (-)NCBICelera
Cytogenetic Map14p22NCBI
TMEM175
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4932,387 - 958,656 (+)EnsemblGRCh38hg38GRCh38
GRCh384932,412 - 958,656 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh374926,248 - 952,444 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364916,262 - 942,444 (+)NCBINCBI36hg18NCBI36
Celera4863,168 - 889,353 (+)NCBI
Cytogenetic Map4p16.3NCBI
HuRef4897,477 - 923,812 (+)NCBIHuRef
CHM1_14925,385 - 952,228 (+)NCBICHM1_1
Tmem175
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395108,777,649 - 108,795,636 (+)NCBIGRCm39mm39
GRCm39 Ensembl5108,777,636 - 108,796,648 (+)Ensembl
GRCm385108,629,779 - 108,647,770 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5108,629,770 - 108,648,782 (+)EnsemblGRCm38mm10GRCm38
MGSCv375109,058,829 - 109,076,789 (+)NCBIGRCm37mm9NCBIm37
MGSCv365108,870,304 - 108,887,565 (+)NCBImm8
Celera5105,751,308 - 105,769,349 (+)NCBICelera
Cytogenetic Map5FNCBI
Tmem175
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955514434,285 - 453,239 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955514434,283 - 453,239 (+)NCBIChiLan1.0ChiLan1.0
TMEM175
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14967,494 - 993,030 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4967,494 - 993,030 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v041,049,647 - 1,074,903 (+)NCBIMhudiblu_PPA_v0panPan3
TMEM175
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl391,553,778 - 91,670,930 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1391,554,001 - 91,576,845 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Tmem175
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647722,239,093 - 22,254,028 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM175
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8297,007 - 313,973 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18295,693 - 313,974 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103246503
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12747,819,512 - 47,852,455 (-)NCBI
ChlSab1.1 Ensembl2747,816,482 - 47,852,472 (-)Ensembl
Tmem175
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475526,190,547 - 26,200,512 (-)NCBI

Position Markers
BI276490  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0142,083,790 - 2,083,945NCBIRnor6.0
Rnor_5.0142,079,333 - 2,079,488UniSTSRnor5.0
RGSC_v3.4141,614,574 - 1,614,729UniSTSRGSC3.4
Celera141,112,892 - 1,113,047UniSTS
Cytogenetic Map14p22UniSTS
RH129524  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0142,083,246 - 2,083,455NCBIRnor6.0
Rnor_5.0142,078,789 - 2,078,998UniSTSRnor5.0
RGSC_v3.4141,614,030 - 1,614,239UniSTSRGSC3.4
Celera141,112,348 - 1,112,557UniSTS
Cytogenetic Map14p22UniSTS
RH135170  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0142,083,881 - 2,084,082NCBIRnor6.0
Rnor_5.0142,079,424 - 2,079,625UniSTSRnor5.0
RGSC_v3.4141,614,665 - 1,614,866UniSTSRGSC3.4
Celera141,112,983 - 1,113,184UniSTS
Cytogenetic Map14p22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14134403399Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14141333960Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14141333960Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14142766285Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:23
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000000050
Prediction methods: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.


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 3 36 22 6 19 6 1 2 74 35 41 11 1
Low 7 35 35 35 7 9 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000050   ⟹   ENSRNOP00000000050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl142,083,712 - 2,100,005 (-)Ensembl
RefSeq Acc Id: NM_001013991   ⟹   NP_001014013
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,506 - 1,089,613 (-)NCBI
Rnor_6.0142,083,745 - 2,099,852 (-)NCBI
Rnor_5.0142,078,799 - 2,095,561 (-)NCBI
RGSC_v3.4141,614,529 - 1,630,636 (-)RGD
Celera141,112,847 - 1,128,959 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250558   ⟹   XP_006250620
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,089,572 (-)NCBI
Rnor_6.0142,083,756 - 2,099,811 (-)NCBI
Rnor_5.0142,078,799 - 2,095,561 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599260   ⟹   XP_017454749
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0142,083,756 - 2,093,378 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599261   ⟹   XP_017454750
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,089,762 (-)NCBI
Rnor_6.0142,083,756 - 2,100,006 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599262   ⟹   XP_017454751
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0142,083,756 - 2,100,004 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599263   ⟹   XP_017454752
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,089,764 (-)NCBI
Rnor_6.0142,083,756 - 2,100,005 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599264   ⟹   XP_017454753
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,089,753 (-)NCBI
Rnor_6.0142,083,756 - 2,100,004 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092128   ⟹   XP_038948056
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,089,762 (-)NCBI
RefSeq Acc Id: XM_039092129   ⟹   XP_038948057
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,089,753 (-)NCBI
RefSeq Acc Id: XM_039092130   ⟹   XP_038948058
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,077,729 (-)NCBI
RefSeq Acc Id: XM_039092131   ⟹   XP_038948059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,073,410 - 1,089,756 (-)NCBI
RefSeq Acc Id: XM_039092132   ⟹   XP_038948060
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2141,074,209 - 1,089,762 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001014013   ⟸   NM_001013991
- UniProtKB: Q6AY05 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006250620   ⟸   XM_006250558
- Peptide Label: isoform X1
- UniProtKB: Q6AY05 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017454750   ⟸   XM_017599261
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017454752   ⟸   XM_017599263
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017454753   ⟸   XM_017599264
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017454751   ⟸   XM_017599262
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017454749   ⟸   XM_017599260
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000000050   ⟸   ENSRNOT00000000050
RefSeq Acc Id: XP_038948056   ⟸   XM_039092128
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038948059   ⟸   XM_039092131
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038948057   ⟸   XM_039092129
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038948058   ⟸   XM_039092130
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038948060   ⟸   XM_039092132
- Peptide Label: isoform X8

Transcriptome

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

Promoters
RGD ID:13699146
Promoter ID:EPDNEW_R9670
Type:initiation region
Name:Tmem175_2
Description:transmembrane protein 175
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9671  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0142,099,820 - 2,099,880EPDNEW
RGD ID:13699147
Promoter ID:EPDNEW_R9671
Type:initiation region
Name:Tmem175_1
Description:transmembrane protein 175
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9670  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0142,099,996 - 2,100,056EPDNEW

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)
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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:1309712 AgrOrtholog
Ensembl Genes ENSRNOG00000000044 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000000050 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000000050 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7132812 IMAGE-MGC_LOAD
InterPro TMEM175 UniProtKB/Swiss-Prot
KEGG Report rno:305623 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94332 IMAGE-MGC_LOAD
NCBI Gene 305623 ENTREZGENE
Pfam DUF1211 UniProtKB/Swiss-Prot
PhenoGen Tmem175 PhenoGen
UniProt Q6AY05 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-26 Tmem175  transmembrane protein 175  RGD1309712  similar to RIKEN cDNA 3010001K23 gene  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1309712  similar to RIKEN cDNA 3010001K23 gene  RGD1309712_predicted  similar to RIKEN cDNA 3010001K23 gene (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1309712_predicted  similar to RIKEN cDNA 3010001K23 gene (predicted)  LOC305623_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC305623_predicted  similar to RIKEN cDNA 3010001K23 gene (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL