Tmem52b (transmembrane protein 52B) - Rat Genome Database

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Gene: Tmem52b (transmembrane protein 52B) Rattus norvegicus
Analyze
Symbol: Tmem52b
Name: transmembrane protein 52B
RGD ID: 1586337
Description: Orthologous to human TMEM52B (transmembrane protein 52B); INTERACTS WITH bisphenol A; 1,1-dichloroethene (ortholog); aflatoxin B1 (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC689963; LOC689963; uncharacterized protein LOC689963
RGD Orthologs
Human
Mouse
Chinchilla
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
GRCr84164,640,049 - 164,645,244 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4164,640,049 - 164,645,244 (+)EnsemblGRCr8
mRatBN7.24162,954,025 - 162,959,220 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4162,954,025 - 162,959,220 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4169,188,845 - 169,194,046 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04164,971,801 - 164,976,984 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04163,605,839 - 163,611,036 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04163,267,410 - 163,273,533 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4163,267,450 - 163,274,028 (+)Ensemblrn6Rnor6.0
Rnor_5.04211,910,973 - 211,917,065 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44166,774,844 - 166,780,043 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4151,638,353 - 151,643,548 (+)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse:




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:19056867  


Genomics

Comparative Map Data
Tmem52b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84164,640,049 - 164,645,244 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4164,640,049 - 164,645,244 (+)EnsemblGRCr8
mRatBN7.24162,954,025 - 162,959,220 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4162,954,025 - 162,959,220 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4169,188,845 - 169,194,046 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04164,971,801 - 164,976,984 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04163,605,839 - 163,611,036 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04163,267,410 - 163,273,533 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4163,267,450 - 163,274,028 (+)Ensemblrn6Rnor6.0
Rnor_5.04211,910,973 - 211,917,065 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44166,774,844 - 166,780,043 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4151,638,353 - 151,643,548 (+)NCBICelera
Cytogenetic Map4q42NCBI
TMEM52B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381210,170,513 - 10,191,804 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1210,170,512 - 10,191,807 (+)Ensemblhg38GRCh38
GRCh371210,323,112 - 10,344,403 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361210,222,824 - 10,235,670 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1215,492,222 - 15,505,070 (+)NCBICelera
Cytogenetic Map12p13.2NCBI
HuRef1210,075,589 - 10,087,901 (+)NCBIHuRef
CHM1_11210,300,845 - 10,313,694 (+)NCBICHM1_1
T2T-CHM13v2.01210,057,239 - 10,078,519 (+)NCBIT2T-CHM13v2.0
Tmem52b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396129,489,512 - 129,496,190 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6129,489,518 - 129,496,190 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm386129,512,549 - 129,519,227 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6129,512,555 - 129,519,227 (+)Ensemblmm10GRCm38
MGSCv376129,462,575 - 129,469,245 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv366129,478,250 - 129,484,920 (+)NCBIMGSCv36mm8
Celera6131,236,405 - 131,243,120 (+)NCBICelera
Cytogenetic Map6F3NCBI
cM Map663.37NCBI
Tmem52b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554137,695,050 - 7,704,136 (-)Ensembl
ChiLan1.0NW_0049554137,695,578 - 7,711,866 (-)NCBIChiLan1.0ChiLan1.0
TMEM52B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21015,653,150 - 15,672,628 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11215,649,908 - 15,671,500 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01210,209,071 - 10,229,999 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11210,467,782 - 10,480,379 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1210,467,782 - 10,481,626 (+)EnsemblpanPan2panpan1.1
TMEM52B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12735,813,821 - 35,822,684 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2735,810,765 - 35,822,553 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2710,800,926 - 10,809,828 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02736,159,853 - 36,168,757 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2736,160,789 - 36,168,706 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12736,048,029 - 36,056,926 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02736,070,041 - 36,078,943 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02710,322,636 - 10,331,541 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tmem52b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494597,260,360 - 97,267,970 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936902393,170 - 399,113 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936902391,985 - 399,091 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM52B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl561,779,815 - 61,788,561 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1561,779,813 - 61,788,625 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2564,601,200 - 64,610,019 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TMEM52B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11110,054,481 - 10,066,955 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1110,055,095 - 10,068,220 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660892,130,942 - 2,142,089 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem52b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475226,939,292 - 26,947,581 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475226,928,774 - 26,947,359 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Tmem52b
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1618,087,315 - 18,092,559 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:149
Count of miRNA genes:112
Interacting mature miRNAs:121
Transcripts:ENSRNOT00000011217
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
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4146370897184426481Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4134095016179095016Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4149763204169799698Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4146370897184426481Rat
1358364Sradr4Stress Responsive Adrenal Weight QTL 44.92adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)4131384565176384565Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4123870974168870974Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4140059299181024663Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4157292416184426481Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4106848959168870974Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4127263297172263297Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4126334185171334185Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4147299608184426481Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4124700988169700988Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155834926184426481Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4137447185182447185Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4137430611182430611Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4134199006168870974Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4148121375176967367Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4160623982184426481Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4148834094168870974Rat


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
11 11 23 93 58 57 26 27 26 6 201 75 3 73 81 51 31 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000079337   ⟹   ENSRNOP00000074288
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4164,640,049 - 164,645,244 (+)Ensembl
mRatBN7.2 Ensembl4162,954,025 - 162,959,220 (+)Ensembl
Rnor_6.0 Ensembl4163,267,450 - 163,274,028 (+)Ensembl
RefSeq Acc Id: NM_001109560   ⟹   NP_001103030
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84164,640,049 - 164,645,244 (+)NCBI
mRatBN7.24162,954,025 - 162,959,220 (+)NCBI
Rnor_6.04163,267,441 - 163,272,636 (+)NCBI
Rnor_5.04211,910,973 - 211,917,065 (+)NCBI
RGSC_v3.44166,774,844 - 166,780,043 (+)RGD
Celera4151,638,353 - 151,643,548 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001103030 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM01736 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074288
  ENSRNOP00000074288.1
RefSeq Acc Id: NP_001103030   ⟸   NM_001109560
- UniProtKB: D4A424 (UniProtKB/TrEMBL),   A6IM53 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000074288   ⟸   ENSRNOT00000079337

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A424-F1-model_v2 AlphaFold D4A424 1-192 view protein structure

Transcriptome

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

Promoters
RGD ID:13693437
Promoter ID:EPDNEW_R3962
Type:initiation region
Name:Tmem52b_1
Description:transmembrane protein 52B
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_6.04163,267,482 - 163,267,542EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586337 AgrOrtholog
BioCyc Gene G2FUF-42778 BioCyc
Ensembl Genes ENSRNOG00000058653 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000079337 ENTREZGENE
  ENSRNOT00000079337.3 UniProtKB/TrEMBL
InterPro TMEM52 UniProtKB/TrEMBL
KEGG Report rno:689963 UniProtKB/TrEMBL
NCBI Gene 689963 ENTREZGENE
PANTHER PTHR33955 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 52B UniProtKB/TrEMBL
Pfam TMEM52 UniProtKB/TrEMBL
PhenoGen Tmem52b PhenoGen
RatGTEx ENSRNOG00000058653 RatGTEx
UniProt A6IM53 ENTREZGENE, UniProtKB/TrEMBL
  D4A424 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-02 Tmem52b  transmembrane protein 52B  LOC689963  hypothetical protein LOC689963  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689963  hypothetical protein LOC689963  LOC683924  hypothetical protein LOC683924  Data merged from RGD:1596569 1643240 APPROVED
2006-11-20 LOC683924  hypothetical protein LOC683924      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC689963  hypothetical protein LOC689963      Symbol and Name status set to provisional 70820 PROVISIONAL