Tmem89 (transmembrane protein 89) - Rat Genome Database

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Gene: Tmem89 (transmembrane protein 89) Rattus norvegicus
Analyze
Symbol: Tmem89
Name: transmembrane protein 89
RGD ID: 1564575
Description: Orthologous to human TMEM89 (transmembrane protein 89); INTERACTS WITH bisphenol A; fenvalerate; 17beta-estradiol (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC501056; RGD1564575
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88118,449,870 - 118,450,764 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8118,449,870 - 118,450,764 (+)EnsemblGRCr8
mRatBN7.28109,571,377 - 109,572,271 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8109,571,377 - 109,572,271 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8115,188,918 - 115,189,812 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08113,388,099 - 113,388,993 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,230,897 - 111,231,791 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08117,660,975 - 117,661,869 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8117,660,964 - 117,661,918 (+)Ensemblrn6Rnor6.0
Rnor_5.08117,004,788 - 117,005,682 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48113,936,972 - 113,937,866 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8108,865,124 - 108,866,018 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse:




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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21630459  


Genomics

Comparative Map Data
Tmem89
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88118,449,870 - 118,450,764 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8118,449,870 - 118,450,764 (+)EnsemblGRCr8
mRatBN7.28109,571,377 - 109,572,271 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8109,571,377 - 109,572,271 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8115,188,918 - 115,189,812 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08113,388,099 - 113,388,993 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,230,897 - 111,231,791 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08117,660,975 - 117,661,869 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8117,660,964 - 117,661,918 (+)Ensemblrn6Rnor6.0
Rnor_5.08117,004,788 - 117,005,682 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48113,936,972 - 113,937,866 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8108,865,124 - 108,866,018 (+)NCBICelera
Cytogenetic Map8q32NCBI
TMEM89
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38348,620,759 - 48,621,769 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl348,620,759 - 48,621,769 (-)Ensemblhg38GRCh38
GRCh37348,658,192 - 48,659,202 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36348,633,279 - 48,634,193 (-)NCBIBuild 36Build 36hg18NCBI36
Celera348,614,015 - 48,614,929 (-)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef348,716,523 - 48,717,437 (-)NCBIHuRef
CHM1_1348,610,569 - 48,611,483 (-)NCBICHM1_1
T2T-CHM13v2.0348,649,719 - 48,650,729 (-)NCBIT2T-CHM13v2.0
Tmem89
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399108,743,687 - 108,744,631 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9108,743,687 - 108,744,631 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm389108,914,619 - 108,915,563 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9108,914,619 - 108,915,563 (+)Ensemblmm10GRCm38
MGSCv379108,816,950 - 108,817,894 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv369108,771,842 - 108,772,786 (+)NCBIMGSCv36mm8
Celera9108,472,625 - 108,473,569 (+)NCBICelera
Cytogenetic Map9F2NCBI
cM Map959.63NCBI
TMEM89
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2248,592,133 - 48,599,821 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1348,596,654 - 48,604,746 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0348,542,058 - 48,543,674 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1349,624,215 - 49,625,449 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl349,624,215 - 49,625,444 (-)EnsemblpanPan2panpan1.1
TMEM89
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12040,496,844 - 40,497,742 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2040,496,844 - 40,497,742 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2040,414,064 - 40,414,962 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02040,982,207 - 40,983,105 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2040,982,207 - 40,983,105 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12040,219,656 - 40,220,554 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02040,624,162 - 40,625,060 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02040,905,361 - 40,906,259 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tmem89
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560263,662,515 - 63,665,208 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936529423,025 - 423,958 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936529422,145 - 424,320 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM89
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1331,315,737 - 31,316,740 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11331,315,148 - 31,316,849 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21334,579,358 - 34,580,259 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TMEM89
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12210,029,176 - 10,030,420 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2210,029,181 - 10,030,078 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666041157,060,160 - 157,061,341 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem89
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247302,636,577 - 2,637,473 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247302,634,999 - 2,637,832 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tmem89
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18100,197,231 - 100,198,279 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tmem89
15 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:87
Count of miRNA genes:74
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000049240
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)882352698127352698Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)861019838121662124Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)880768445125768445Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)880768445125768445Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)870041301121080908Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)868690349119799881Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8103375781129871912Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)898145073122898010Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)880768445125768445Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)880768445125768445Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat


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
9 7 46 111 45 40 23 34 23 6 180 101 2 96 44 61 17 6 6

Sequence


Ensembl Acc Id: ENSRNOT00000049240   ⟹   ENSRNOP00000046724
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8118,449,870 - 118,450,764 (+)Ensembl
mRatBN7.2 Ensembl8109,571,377 - 109,572,271 (+)Ensembl
Rnor_6.0 Ensembl8117,660,964 - 117,661,918 (+)Ensembl
RefSeq Acc Id: NM_001163477   ⟹   NP_001156949
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88118,449,870 - 118,450,764 (+)NCBI
mRatBN7.28109,571,377 - 109,572,271 (+)NCBI
Rnor_6.08117,660,975 - 117,661,869 (+)NCBI
Rnor_5.08117,004,788 - 117,005,682 (+)NCBI
RGSC_v3.48113,936,972 - 113,937,866 (+)RGD
Celera8108,865,124 - 108,866,018 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001156949 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL77133 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000046724
  ENSRNOP00000046724.3
RefSeq Acc Id: NP_001156949   ⟸   NM_001163477
- Peptide Label: precursor
- UniProtKB: D3ZLN5 (UniProtKB/TrEMBL),   A6I394 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000046724   ⟸   ENSRNOT00000049240

Transcriptome

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

Promoters
RGD ID:13696316
Promoter ID:EPDNEW_R6841
Type:multiple initiation site
Name:Tmem89_1
Description:transmembrane protein 89
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_6.08117,660,986 - 117,661,046EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564575 AgrOrtholog
BioCyc Gene G2FUF-29106 BioCyc
Ensembl Genes ENSRNOG00000031141 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000049240 ENTREZGENE
  ENSRNOT00000049240.7 UniProtKB/TrEMBL
InterPro TMEM89 UniProtKB/TrEMBL
KEGG Report rno:501056 UniProtKB/TrEMBL
NCBI Gene 501056 ENTREZGENE
PANTHER PTHR37869 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 89 UniProtKB/TrEMBL
Pfam TMEM89 UniProtKB/TrEMBL
PhenoGen Tmem89 PhenoGen
RatGTEx ENSRNOG00000031141 RatGTEx
UniProt A6I394 ENTREZGENE, UniProtKB/TrEMBL
  D3ZLN5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-12 Tmem89  transmembrane protein 89  RGD1564575  RGD1564575  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564575  RGD1564575   RGD1564575_predicted  RGD1564575 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564575_predicted  RGD1564575 (predicted)  LOC501056  LOC501056  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC501056  LOC501056      Symbol and Name status set to provisional 70820 PROVISIONAL