Tarm1 (T cell-interacting, activating receptor on myeloid cells 1) - Rat Genome Database

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Gene: Tarm1 (T cell-interacting, activating receptor on myeloid cells 1) Rattus norvegicus
Analyze
Symbol: Tarm1
Name: T cell-interacting, activating receptor on myeloid cells 1
RGD ID: 1564272
Description: Predicted to enable immunoglobulin receptor binding activity. Predicted to be involved in immune response-regulating signaling pathway; negative regulation of CD4-positive, alpha-beta T cell proliferation; and positive regulation of cytokine production involved in inflammatory response. Predicted to be located in membrane. Predicted to be active in plasma membrane. Orthologous to human TARM1 (T cell-interacting, activating receptor on myeloid cells 1); INTERACTS WITH dioxygen; 4,4'-sulfonyldiphenol (ortholog); Aflatoxin B2 alpha (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: RGD1564272; similar to RIKEN cDNA 9930022N03 gene; T-cell-interacting, activating receptor on myeloid cells protein 1; T-cell-interacting, activating receptor on myeloid cells protein 1-like
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8174,582,103 - 74,600,203 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl174,587,299 - 74,595,023 (+)EnsemblGRCr8
mRatBN7.2165,666,742 - 65,682,402 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl165,671,902 - 65,679,626 (+)EnsemblmRatBN7.2
Rnor_6.0164,241,742 - 64,256,646 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl164,241,865 - 64,254,564 (+)Ensemblrn6Rnor6.0
Rnor_5.0163,233,198 - 63,248,022 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4163,979,894 - 63,992,593 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera163,390,776 - 63,405,679 (+)NCBICelera
Cytogenetic Map1q12NCBI
JBrowse:




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

Cellular Component
plasma membrane  (IBA,ISO)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:26311901  


Genomics

Comparative Map Data
Tarm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8174,582,103 - 74,600,203 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl174,587,299 - 74,595,023 (+)EnsemblGRCr8
mRatBN7.2165,666,742 - 65,682,402 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl165,671,902 - 65,679,626 (+)EnsemblmRatBN7.2
Rnor_6.0164,241,742 - 64,256,646 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl164,241,865 - 64,254,564 (+)Ensemblrn6Rnor6.0
Rnor_5.0163,233,198 - 63,248,022 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4163,979,894 - 63,992,593 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera163,390,776 - 63,405,679 (+)NCBICelera
Cytogenetic Map1q12NCBI
TARM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381954,069,895 - 54,081,365 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1954,069,895 - 54,081,365 (-)Ensemblhg38GRCh38
GRCh371954,573,149 - 54,584,634 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361959,265,069 - 59,276,421 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1951,612,866 - 51,624,307 (-)NCBICelera
Cytogenetic Map19q13.42NCBI
HuRef1950,888,981 - 50,900,482 (-)NCBIHuRef
CHM1_11954,574,966 - 54,586,384 (-)NCBICHM1_1
T2T-CHM13v2.01957,148,389 - 57,159,893 (-)NCBIT2T-CHM13v2.0
Tarm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3973,535,015 - 3,551,159 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl73,535,016 - 3,551,140 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3873,486,499 - 3,502,754 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl73,486,500 - 3,502,624 (-)Ensemblmm10GRCm38
MGSCv3773,489,957 - 3,503,433 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
Celera73,442,677 - 3,460,387 (-)NCBICelera
Cytogenetic Map7A1NCBI
cM Map72.04NCBI
TARM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22060,074,577 - 60,087,223 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11961,996,362 - 62,009,012 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01951,002,643 - 51,014,597 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11959,846,601 - 59,857,087 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1959,846,601 - 59,857,087 (-)EnsemblpanPan2panpan1.1
LOC484314
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11103,182,052 - 103,187,416 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1103,243,657 - 103,249,266 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01103,831,921 - 103,837,531 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.11103,464,747 - 103,470,357 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01103,226,403 - 103,232,012 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01103,945,330 - 103,950,941 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
TARM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl656,038,524 - 56,049,764 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1656,038,524 - 56,051,487 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2653,165,322 - 53,171,328 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TARM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1646,749,522 - 46,755,192 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl646,749,580 - 46,754,799 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607326,835,838 - 26,840,960 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Tarm1
118 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:163
Count of miRNA genes:126
Interacting mature miRNAs:139
Transcripts:ENSRNOT00000059241
Prediction methods:Microtar, Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)14345783787558729Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14630261591302615Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)14345783787558729Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)14630261591302615Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)14212296887122968Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)14630261591302615Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14345783787558729Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)14630261591302615Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13456572679565726Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15190920691302615Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)14630261591302615Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)14350995288509952Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)14212296887122968Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)14630261591302615Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat

Markers in Region
D1Rat93  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2165,677,942 - 65,678,123 (+)MAPPERmRatBN7.2
Rnor_6.0164,252,881 - 64,253,061NCBIRnor6.0
Rnor_5.0163,244,295 - 63,244,475UniSTSRnor5.0
RGSC_v3.4163,990,899 - 63,991,255RGDRGSC3.4
RGSC_v3.4163,990,910 - 63,991,090UniSTSRGSC3.4
Celera163,401,914 - 63,402,094UniSTS
RGSC_v3.1164,067,649 - 64,067,829RGD
RH 3.4 Map1740.2RGD
RH 3.4 Map1740.2UniSTS
RH 2.0 Map1460.8RGD
FHH x ACI Map133.7599RGD
Cytogenetic Map1q12UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
8 2 9 34 17 31 9 73 9 1 131 94 11 25 19 34 22 7 7

Sequence


Ensembl Acc Id: ENSRNOT00000082095   ⟹   ENSRNOP00000073926
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl174,587,299 - 74,595,023 (+)Ensembl
mRatBN7.2 Ensembl165,671,902 - 65,679,626 (+)Ensembl
Rnor_6.0 Ensembl164,241,865 - 64,254,564 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000120054   ⟹   ENSRNOP00000078382
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl165,672,256 - 65,679,626 (+)Ensembl
RefSeq Acc Id: XM_017589925   ⟹   XP_017445414
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8174,582,103 - 74,600,203 (+)NCBI
mRatBN7.2165,666,744 - 65,682,402 (+)NCBI
Rnor_6.0164,241,742 - 64,249,893 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039100413   ⟹   XP_038956341
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8174,582,103 - 74,600,203 (+)NCBI
mRatBN7.2165,666,742 - 65,682,402 (+)NCBI
RefSeq Acc Id: XM_039100423   ⟹   XP_038956351
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8174,582,123 - 74,600,202 (+)NCBI
mRatBN7.2165,666,759 - 65,682,402 (+)NCBI
RefSeq Acc Id: XM_063280903   ⟹   XP_063136973
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8174,582,115 - 74,600,202 (+)NCBI
RefSeq Acc Id: XM_063280904   ⟹   XP_063136974
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8174,582,109 - 74,600,202 (+)NCBI
RefSeq Acc Id: XM_063280905   ⟹   XP_063136975
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8174,582,104 - 74,600,203 (+)NCBI
RefSeq Acc Id: XP_017445414   ⟸   XM_017589925
- Peptide Label: isoform X4
- Sequence:
Ensembl Acc Id: ENSRNOP00000073926   ⟸   ENSRNOT00000082095
RefSeq Acc Id: XP_038956341   ⟸   XM_039100413
- Peptide Label: isoform X5
- UniProtKB: A6KS35 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038956351   ⟸   XM_039100423
- Peptide Label: isoform X6
- UniProtKB: A6KS35 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000078382   ⟸   ENSRNOT00000120054
RefSeq Acc Id: XP_063136975   ⟸   XM_063280905
- Peptide Label: isoform X3
- UniProtKB: A0A8I5ZKR2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063136974   ⟸   XM_063280904
- Peptide Label: isoform X2
- UniProtKB: D3ZW99 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063136973   ⟸   XM_063280903
- Peptide Label: isoform X1
- UniProtKB: D3ZW99 (UniProtKB/TrEMBL)
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZW99-F1-model_v2 AlphaFold D3ZW99 1-288 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564272 AgrOrtholog
BioCyc Gene G2FUF-61028 BioCyc
Ensembl Genes ENSRNOG00000055581 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000082095.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig-like_Receptors_ImmuneReg UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
NCBI Gene Tarm1 ENTREZGENE
PANTHER MHC CLASS I NK CELL RECEPTOR UniProtKB/TrEMBL
  T-CELL-INTERACTING, ACTIVATING RECEPTOR ON MYELOID CELLS PROTEIN 1 UniProtKB/TrEMBL
Pfam Ig_2 UniProtKB/TrEMBL
  Ig_3 UniProtKB/TrEMBL
PhenoGen Tarm1 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000055581 RatGTEx
SMART SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A8I5ZKR2 ENTREZGENE
  A6KS35 ENTREZGENE, UniProtKB/TrEMBL
  D3ZW99 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-02-09 Tarm1  T cell-interacting, activating receptor on myeloid cells 1      Symbol and Name status set to provisional 70820 PROVISIONAL