Tmem165 (transmembrane protein 165) - Rat Genome Database

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Gene: Tmem165 (transmembrane protein 165) Rattus norvegicus
Analyze
Symbol: Tmem165
Name: transmembrane protein 165
RGD ID: 1306983
Description: Predicted to enable calcium ion transmembrane transporter activity and manganese ion transmembrane transporter activity. Predicted to be involved in intracellular monoatomic cation homeostasis; metal ion transport; and protein N-linked glycosylation. Predicted to be located in bounding membrane of organelle and trans-Golgi network membrane. Predicted to be active in Golgi apparatus. Human ortholog(s) of this gene implicated in congenital disorder of glycosylation type IIk. Orthologous to human TMEM165 (transmembrane protein 165); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC100911646; LOC364137; putative divalent cation/proton antiporter TMEM165; TPA regulated locus; Tparl; transmembrane protein 165-like; transmembrane protein TPARL
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81432,347,688 - 32,372,916 (-)NCBIGRCr8
mRatBN7.21431,993,489 - 32,018,717 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1431,993,493 - 32,018,717 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1432,359,800 - 32,385,021 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01433,667,692 - 33,692,913 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01432,152,809 - 32,178,030 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01434,503,037 - 34,528,262 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1434,503,038 - 34,528,262 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01434,290,287 - 34,315,512 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41434,265,575 - 34,290,800 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11434,265,575 - 34,290,800 (-)NCBI
Celera1431,294,526 - 31,319,751 (-)NCBICelera
Cytogenetic Map14p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:22683087   PMID:23569283   PMID:23575229  


Genomics

Comparative Map Data
Tmem165
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81432,347,688 - 32,372,916 (-)NCBIGRCr8
mRatBN7.21431,993,489 - 32,018,717 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1431,993,493 - 32,018,717 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1432,359,800 - 32,385,021 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01433,667,692 - 33,692,913 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01432,152,809 - 32,178,030 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01434,503,037 - 34,528,262 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1434,503,038 - 34,528,262 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01434,290,287 - 34,315,512 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41434,265,575 - 34,290,800 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11434,265,575 - 34,290,800 (-)NCBI
Celera1431,294,526 - 31,319,751 (-)NCBICelera
Cytogenetic Map14p11NCBI
TMEM165
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38455,395,957 - 55,453,397 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl455,395,957 - 55,453,397 (+)EnsemblGRCh38hg38GRCh38
GRCh37456,262,124 - 56,292,342 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36455,957,114 - 55,987,099 (+)NCBINCBI36Build 36hg18NCBI36
Celera453,763,917 - 53,794,196 (+)NCBICelera
Cytogenetic Map4q12NCBI
HuRef452,211,028 - 52,241,329 (+)NCBIHuRef
CHM1_1456,297,232 - 56,327,471 (+)NCBICHM1_1
T2T-CHM13v2.0458,884,101 - 58,941,541 (+)NCBIT2T-CHM13v2.0
Tmem165
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39576,331,727 - 76,357,091 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl576,331,727 - 76,357,092 (+)EnsemblGRCm39 Ensembl
GRCm38576,183,880 - 76,209,244 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl576,183,880 - 76,209,245 (+)EnsemblGRCm38mm10GRCm38
MGSCv37576,612,905 - 76,638,269 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36577,258,725 - 77,284,019 (+)NCBIMGSCv36mm8
Celera573,455,356 - 73,480,717 (+)NCBICelera
Cytogenetic Map5C3.3NCBI
cM Map540.56NCBI
Tmem165
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544715,538,958 - 15,543,892 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544715,538,958 - 15,543,885 (-)NCBIChiLan1.0ChiLan1.0
TMEM165
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2374,339,011 - 74,396,393 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1474,543,016 - 74,600,312 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0468,484,896 - 68,541,808 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1475,075,427 - 75,104,629 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl475,075,427 - 75,104,629 (-)Ensemblpanpan1.1panPan2
TMEM165
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11347,658,408 - 47,683,519 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1347,658,330 - 47,682,866 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1347,615,826 - 47,640,649 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01348,269,540 - 48,294,369 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1348,269,177 - 48,293,716 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11347,944,501 - 47,969,326 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01347,472,885 - 47,498,052 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01348,421,927 - 48,446,757 (+)NCBIUU_Cfam_GSD_1.0
Tmem165
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528528,512,769 - 28,537,702 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648217,760,384 - 17,785,587 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648217,760,532 - 17,785,466 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM165
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl854,751,572 - 54,787,886 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1854,751,570 - 54,796,352 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2858,762,005 - 58,769,745 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TMEM165
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1713,136,414 - 13,167,521 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl713,135,845 - 13,167,499 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606613,893,044 - 13,924,787 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem165
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476114,038,758 - 14,066,894 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476114,039,698 - 14,066,750 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tmem165
86 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:52
Interacting mature miRNAs:62
Transcripts:ENSRNOT00000003010
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
2324617Coatc2Coat color QTL 20.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)143076702539153750Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)141759376142336881Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141863134542337007Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142216796767167967Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141762256142337007Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat

Markers in Region
RH128025  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21431,993,647 - 31,993,834 (+)MAPPERmRatBN7.2
Rnor_6.01434,503,193 - 34,503,379NCBIRnor6.0
Rnor_5.01434,336,029 - 34,336,215UniSTSRnor5.0
Rnor_5.01434,290,443 - 34,290,629UniSTSRnor5.0
RGSC_v3.41434,265,731 - 34,265,917UniSTSRGSC3.4
Celera1431,294,682 - 31,294,868UniSTS
RH 3.4 Map14380.18UniSTS
Cytogenetic Map14p11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000003010   ⟹   ENSRNOP00000003010
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1431,993,493 - 32,018,717 (-)Ensembl
Rnor_6.0 Ensembl1434,503,038 - 34,528,262 (-)Ensembl
RefSeq Acc Id: NM_001024802   ⟹   NP_001019973
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81432,347,691 - 32,372,916 (-)NCBI
mRatBN7.21431,993,492 - 32,018,717 (-)NCBI
Rnor_6.01434,503,037 - 34,528,262 (-)NCBI
Rnor_5.01434,290,287 - 34,315,512 (-)NCBI
RGSC_v3.41434,265,575 - 34,290,800 (-)RGD
Celera1431,294,526 - 31,319,751 (-)RGD
Sequence:
RefSeq Acc Id: XM_039092245   ⟹   XP_038948173
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81432,347,688 - 32,363,108 (-)NCBI
mRatBN7.21431,993,489 - 32,009,005 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001019973 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948173 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH97478 (Get FASTA)   NCBI Sequence Viewer  
  EDL89912 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000003010.3
  ENSRNOP00055006349
  ENSRNOP00060025841
  ENSRNOP00065028153
GenBank Protein Q4V899 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001019973   ⟸   NM_001024802
- Peptide Label: precursor
- UniProtKB: Q4V899 (UniProtKB/Swiss-Prot),   A6JCZ0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003010   ⟸   ENSRNOT00000003010
RefSeq Acc Id: XP_038948173   ⟸   XM_039092245
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4V899-F1-model_v2 AlphaFold Q4V899 1-323 view protein structure

Transcriptome

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

Promoters
RGD ID:13699276
Promoter ID:EPDNEW_R9801
Type:initiation region
Name:Tmem165_1
Description:transmembrane protein 165
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_6.01434,528,238 - 34,528,298EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306983 AgrOrtholog
BioCyc Gene G2FUF-15935 BioCyc
Ensembl Genes ENSRNOG00000002199 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00055005236 UniProtKB/Swiss-Prot
  ENSRNOG00060018506 UniProtKB/Swiss-Prot
  ENSRNOG00065020675 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003010.7 UniProtKB/Swiss-Prot
  ENSRNOT00055008396 UniProtKB/Swiss-Prot
  ENSRNOT00060031812 UniProtKB/Swiss-Prot
  ENSRNOT00065035029 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7458161 IMAGE-MGC_LOAD
InterPro Gdt1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GDT1-like_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:364137 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:114543 IMAGE-MGC_LOAD
NCBI Gene 364137 ENTREZGENE
PANTHER PTHR12608 UniProtKB/Swiss-Prot
  TRANSMEMBRANE PROTEIN 165 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN HTP-1 RELATED UniProtKB/TrEMBL
Pfam UPF0016 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tmem165 PhenoGen
PROSITE UPF0016 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002199 RatGTEx
  ENSRNOG00055005236 RatGTEx
  ENSRNOG00060018506 RatGTEx
  ENSRNOG00065020675 RatGTEx
UniProt A6JCZ0 ENTREZGENE, UniProtKB/TrEMBL
  Q4V899 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 Tmem165  transmembrane protein 165  LOC100911646  transmembrane protein 165-like  Data merged from RGD:6491646 737654 PROVISIONAL
2012-07-05 LOC100911646  transmembrane protein 165-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-04 Tmem165  transmembrane protein 165  Tparl  TPA regulated locus  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Tparl  TPA regulated locus  Tparl_predicted  TPA regulated locus (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Tparl_predicted  TPA regulated locus (predicted)      Symbol and Name status set to approved 70820 APPROVED