Tmem250 (transmembrane protein 250) - Rat Genome Database

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Gene: Tmem250 (transmembrane protein 250) Rattus norvegicus
Analyze
Symbol: Tmem250
Name: transmembrane protein 250
RGD ID: 1564379
Description: Predicted to be involved in positive regulation of cell population proliferation and positive regulation of viral process. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human TMEM250 (transmembrane protein 250); INTERACTS WITH bisphenol A; buspirone; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC499758; LOC499758; RGD1564379; RGD1564379; uncharacterized protein LOC499758
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
GRCr8329,360,770 - 29,364,756 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl329,360,770 - 29,364,462 (-)EnsemblGRCr8
mRatBN7.238,962,657 - 8,966,349 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,962,657 - 8,966,349 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx312,016,515 - 12,020,204 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,599,743 - 20,603,432 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,855,057 - 18,858,746 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.033,590,783 - 3,594,475 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,590,783 - 3,594,475 (-)Ensemblrn6Rnor6.0
Rnor_5.038,952,576 - 8,956,268 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.434,317,604 - 4,321,296 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera33,785,606 - 3,789,298 (-)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,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:12477932   PMID:21667337  


Genomics

Comparative Map Data
Tmem250
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8329,360,770 - 29,364,756 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl329,360,770 - 29,364,462 (-)EnsemblGRCr8
mRatBN7.238,962,657 - 8,966,349 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,962,657 - 8,966,349 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx312,016,515 - 12,020,204 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,599,743 - 20,603,432 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,855,057 - 18,858,746 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.033,590,783 - 3,594,475 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,590,783 - 3,594,475 (-)Ensemblrn6Rnor6.0
Rnor_5.038,952,576 - 8,956,268 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.434,317,604 - 4,321,296 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera33,785,606 - 3,789,298 (-)NCBICelera
Cytogenetic Map3p13NCBI
TMEM250
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389136,114,589 - 136,118,875 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9136,114,580 - 136,118,946 (-)Ensemblhg38GRCh38
GRCh379139,006,435 - 139,010,721 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369138,146,248 - 138,150,552 (-)NCBIBuild 36Build 36hg18NCBI36
Celera9109,524,655 - 109,528,958 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9108,469,372 - 108,473,646 (-)NCBIHuRef
CHM1_19139,154,725 - 139,159,029 (-)NCBICHM1_1
T2T-CHM13v2.09148,343,992 - 148,348,278 (-)NCBIT2T-CHM13v2.0
Tmem250
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39226,026,819 - 26,030,518 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl226,026,826 - 26,030,533 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38226,136,807 - 26,140,506 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl226,136,814 - 26,140,521 (-)Ensemblmm10GRCm38
MGSCv37225,983,951 - 25,996,026 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36225,958,820 - 25,962,342 (-)NCBIMGSCv36mm8
Celera225,850,901 - 25,863,014 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map218.35NCBI
Tmem250
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,520,445 - 4,524,203 (+)Ensembl
ChiLan1.0NW_0049555134,520,445 - 4,524,203 (+)NCBIChiLan1.0ChiLan1.0
TMEM250
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2113,267,774 - 3,271,805 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan193,270,109 - 3,274,140 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09107,187,362 - 107,191,642 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19136,168,980 - 136,171,292 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9136,170,880 - 136,171,292 (-)EnsemblpanPan2panpan1.1
TMEM250
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1949,308,397 - 49,311,360 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl949,308,350 - 49,311,487 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha948,558,059 - 48,561,647 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0950,184,246 - 50,187,834 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl950,184,284 - 50,187,961 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,964,734 - 48,968,322 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0949,259,025 - 49,262,613 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0949,306,637 - 49,310,225 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tmem250
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947201,746,255 - 201,749,605 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366691,626,877 - 1,627,296 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366691,625,459 - 1,628,801 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM250
(Sus scrofa - pig)		 No map positions available.
TMEM250
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1122,081,265 - 2,085,553 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl122,083,261 - 2,083,680 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660583,125,343 - 3,129,621 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem250
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247601,383,478 - 1,386,722 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tmem250
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1510,943,936 - 10,947,678 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tmem250
29 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:270
Count of miRNA genes:178
Interacting mature miRNAs:214
Transcripts:ENSRNOT00000064861
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32905627547904329Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10450811Scl73Serum cholesterol level QTL 734.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat
10450808Scl72Serum cholesterol level QTL 724.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
10450806Scl71Serum cholesterol level QTL 715.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)32862533967641995Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)3612543751125437Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3136721849Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3655634751556347Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31527234860272348Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)32905627547904329Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat

Markers in Region
RH131405  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.238,962,741 - 8,962,957 (+)MAPPERmRatBN7.2
Rnor_6.033,590,868 - 3,591,083NCBIRnor6.0
Rnor_5.038,952,661 - 8,952,876UniSTSRnor5.0
RGSC_v3.434,317,689 - 4,317,904UniSTSRGSC3.4
Celera33,785,691 - 3,785,906UniSTS
Cytogenetic Map3p13UniSTS


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
16 12 67 161 91 90 59 92 59 6 356 192 11 140 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000064861   ⟹   ENSRNOP00000062164
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl329,360,770 - 29,364,462 (-)Ensembl
mRatBN7.2 Ensembl38,962,657 - 8,966,349 (-)Ensembl
Rnor_6.0 Ensembl33,590,783 - 3,594,475 (-)Ensembl
RefSeq Acc Id: NM_001126295   ⟹   NP_001119767
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,360,770 - 29,364,462 (-)NCBI
mRatBN7.238,962,657 - 8,966,349 (-)NCBI
Rnor_6.033,590,783 - 3,594,475 (-)NCBI
Rnor_5.038,952,576 - 8,956,268 (-)NCBI
RGSC_v3.434,317,604 - 4,321,296 (-)RGD
Celera33,785,606 - 3,789,298 (-)RGD
Sequence:
RefSeq Acc Id: XM_006233690   ⟹   XP_006233752
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,360,770 - 29,364,756 (-)NCBI
mRatBN7.238,962,657 - 8,965,488 (-)NCBI
Rnor_6.033,590,783 - 3,593,614 (-)NCBI
Rnor_5.038,952,576 - 8,956,268 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233691   ⟹   XP_006233753
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,360,770 - 29,364,756 (-)NCBI
mRatBN7.238,962,657 - 8,965,997 (-)NCBI
Rnor_6.033,590,783 - 3,594,130 (-)NCBI
Rnor_5.038,952,576 - 8,956,268 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233692   ⟹   XP_006233754
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,360,770 - 29,364,116 (-)NCBI
mRatBN7.238,962,657 - 8,965,659 (-)NCBI
Rnor_6.033,590,783 - 3,593,785 (-)NCBI
Rnor_5.038,952,576 - 8,956,268 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001119767 (Get FASTA)   NCBI Sequence Viewer  
  XP_006233752 (Get FASTA)   NCBI Sequence Viewer  
  XP_006233753 (Get FASTA)   NCBI Sequence Viewer  
  XP_006233754 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI61868 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000062164
  ENSRNOP00000062164.1
RefSeq Acc Id: NP_001119767   ⟸   NM_001126295
- UniProtKB: B2GNF0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233753   ⟸   XM_006233691
- Peptide Label: isoform X1
- UniProtKB: B2GNF0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233754   ⟸   XM_006233692
- Peptide Label: isoform X1
- UniProtKB: B2GNF0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233752   ⟸   XM_006233690
- Peptide Label: isoform X1
- UniProtKB: B2GNF0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000062164   ⟸   ENSRNOT00000064861

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2GNF0-F1-model_v2 AlphaFold B2GNF0 1-139 view protein structure

Transcriptome

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

Promoters
RGD ID:13691897
Promoter ID:EPDNEW_R2422
Type:initiation region
Name:Tmem250_1
Description:transmembrane protein 250
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_6.033,594,489 - 3,594,549EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564379 AgrOrtholog
BioCyc Gene G2FUF-50394 BioCyc
Ensembl Genes ENSRNOG00000042501 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064861 ENTREZGENE
  ENSRNOT00000064861.3 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7108986 IMAGE-MGC_LOAD
InterPro DUF5533 UniProtKB/TrEMBL
KEGG Report rno:499758 UniProtKB/TrEMBL
MGC_CLONE MGC:187423 IMAGE-MGC_LOAD
NCBI Gene 499758 ENTREZGENE
PANTHER TRANSMEMBRANE PROTEIN 250 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 250 UniProtKB/TrEMBL
Pfam DUF5533 UniProtKB/TrEMBL
PhenoGen Tmem250 PhenoGen
RatGTEx ENSRNOG00000042501 RatGTEx
UniProt B2GNF0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-27 Tmem250  transmembrane protein 250  RGD1564379  RGD1564379  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564379  RGD1564379   RGD1564379_predicted  RGD1564379 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564379_predicted  RGD1564379 (predicted)  LOC499758  LOC499758  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499758  LOC499758      Symbol and Name status set to provisional 70820 PROVISIONAL