Tmed5 (transmembrane p24 trafficking protein 5) - Rat Genome Database

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Gene: Tmed5 (transmembrane p24 trafficking protein 5) Rattus norvegicus
Analyze
Symbol: Tmed5
Name: transmembrane p24 trafficking protein 5
RGD ID: 1359437
Description: Predicted to enable cargo receptor activity. Predicted to be involved in Golgi ribbon formation; endoplasmic reticulum to Golgi vesicle-mediated transport; and intracellular protein transport. Predicted to be located in cis-Golgi network and endoplasmic reticulum exit site. Predicted to be active in several cellular components, including COPII-coated ER to Golgi transport vesicle; Golgi apparatus; and endoplasmic reticulum-Golgi intermediate compartment. Orthologous to human TMED5 (transmembrane p24 trafficking protein 5); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CGI-100-like; LRRG00120; MGC95001; p24 family protein gamma-2; p24gamma2; similar to CGI-100-like protein; transmembrane emp24 domain-containing protein 5; transmembrane emp24 protein transport domain containing 5
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8141,752,857 - 1,763,990 (+)NCBIGRCr8
mRatBN7.2141,607,895 - 1,619,028 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl141,607,819 - 1,628,426 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx141,486,848 - 1,497,987 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0142,788,621 - 2,799,760 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0141,485,296 - 1,496,437 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0142,613,318 - 2,624,773 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl142,613,406 - 2,633,950 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0142,612,362 - 2,623,817 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4142,155,594 - 2,167,280 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1142,155,593 - 2,167,271 (+)NCBI
Celera141,628,691 - 1,639,884 (+)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-phenylbutyric acid  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (ISO)
aflatoxin B1  (EXP)
amitrole  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (EXP)
carbon nanotube  (ISO)
carnosic acid  (ISO)
chloropicrin  (ISO)
chloroprene  (EXP)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clorgyline  (ISO)
cocaine  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dichloroacetic acid  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
methimazole  (EXP)
methoxyacetic acid  (EXP)
methylmercury chloride  (EXP,ISO)
miconazole  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
Monobutylphthalate  (EXP)
oxaliplatin  (EXP)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
PCB138  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
tetrachloroethene  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichloroethene  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
xylitol  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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 GOA human gene data--August 2006 GOA data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15308636   PMID:15489334   PMID:19948005  


Genomics

Comparative Map Data
Tmed5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8141,752,857 - 1,763,990 (+)NCBIGRCr8
mRatBN7.2141,607,895 - 1,619,028 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl141,607,819 - 1,628,426 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx141,486,848 - 1,497,987 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0142,788,621 - 2,799,760 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0141,485,296 - 1,496,437 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0142,613,318 - 2,624,773 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl142,613,406 - 2,633,950 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0142,612,362 - 2,623,817 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4142,155,594 - 2,167,280 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1142,155,593 - 2,167,271 (+)NCBI
Celera141,628,691 - 1,639,884 (+)NCBICelera
Cytogenetic Map14p22NCBI
TMED5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38193,149,742 - 93,180,413 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl193,149,742 - 93,180,516 (-)EnsemblGRCh38hg38GRCh38
GRCh37193,615,299 - 93,645,970 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36193,389,999 - 93,418,834 (-)NCBINCBI36Build 36hg18NCBI36
Build 34193,329,427 - 93,358,267NCBI
Celera191,869,455 - 91,900,413 (-)NCBICelera
Cytogenetic Map1p22.1NCBI
HuRef191,736,849 - 91,767,806 (-)NCBIHuRef
CHM1_1193,730,202 - 93,761,150 (-)NCBICHM1_1
T2T-CHM13v2.0192,995,327 - 93,026,003 (-)NCBIT2T-CHM13v2.0
Tmed5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395108,269,422 - 108,280,486 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5108,254,232 - 108,280,486 (-)EnsemblGRCm39 Ensembl
GRCm385108,121,556 - 108,132,620 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5108,106,366 - 108,132,620 (-)EnsemblGRCm38mm10GRCm38
MGSCv375108,550,666 - 108,561,610 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365108,361,949 - 108,372,893 (-)NCBIMGSCv36mm8
Celera5105,239,859 - 105,250,741 (-)NCBICelera
Cytogenetic Map5FNCBI
cM Map552.49NCBI
Tmed5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554231,436,628 - 1,456,970 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554231,436,628 - 1,456,970 (+)NCBIChiLan1.0ChiLan1.0
TMED5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21133,835,694 - 133,864,516 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11132,990,585 - 133,019,411 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0195,821,324 - 95,850,099 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1194,552,590 - 94,582,875 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl194,552,590 - 94,582,875 (-)Ensemblpanpan1.1panPan2
TMED5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1655,917,842 - 55,934,880 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl655,918,077 - 55,932,169 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha658,618,896 - 58,635,690 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0656,293,071 - 56,309,877 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl656,291,987 - 56,309,868 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1655,973,295 - 55,990,051 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0655,951,620 - 55,968,403 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0656,410,717 - 56,427,517 (+)NCBIUU_Cfam_GSD_1.0
Tmed5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058102,889,539 - 102,909,871 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365376,038,207 - 6,058,437 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365376,038,109 - 6,058,434 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMED5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4124,009,816 - 124,030,773 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14124,009,825 - 124,027,445 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24135,564,674 - 135,581,598 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TMED5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12040,074,505 - 40,102,773 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2040,074,545 - 40,099,963 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603377,924,333 - 77,952,991 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmed5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247424,508,777 - 4,535,416 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247424,508,988 - 4,558,909 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tmed5
42 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:324
Count of miRNA genes:204
Interacting mature miRNAs:232
Transcripts:ENSRNOT00000000083
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14121760611030812Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 39 57 41 19 41 8 10 74 35 41 11 8
Low 4 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000083   ⟹   ENSRNOP00000000083
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl141,607,819 - 1,628,426 (+)Ensembl
Rnor_6.0 Ensembl142,613,406 - 2,633,950 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000119350   ⟹   ENSRNOP00000084338
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl141,607,819 - 1,620,873 (+)Ensembl
RefSeq Acc Id: NM_001007619   ⟹   NP_001007620
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8141,752,857 - 1,763,990 (+)NCBI
mRatBN7.2141,607,895 - 1,619,028 (+)NCBI
Rnor_6.0142,613,318 - 2,624,773 (+)NCBI
Rnor_5.0142,612,362 - 2,623,817 (+)NCBI
RGSC_v3.4142,155,594 - 2,167,280 (+)RGD
Celera141,628,691 - 1,639,884 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001007620 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79452 (Get FASTA)   NCBI Sequence Viewer  
  AAS66211 (Get FASTA)   NCBI Sequence Viewer  
  EDL83997 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000000083.5
  ENSRNOP00000084338
  ENSRNOP00000084338.1
GenBank Protein Q6AXN3 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001007620   ⟸   NM_001007619
- Peptide Label: precursor
- UniProtKB: Q6AXN3 (UniProtKB/Swiss-Prot),   A6KPG8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000083   ⟸   ENSRNOT00000000083
RefSeq Acc Id: ENSRNOP00000084338   ⟸   ENSRNOT00000119350
Protein Domains
GOLD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AXN3-F1-model_v2 AlphaFold Q6AXN3 1-229 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:1359437 AgrOrtholog
BioCyc Gene G2FUF-16653 BioCyc
Ensembl Genes ENSRNOG00000000073 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000083.7 UniProtKB/TrEMBL
  ENSRNOT00000119350 ENTREZGENE
  ENSRNOT00000119350.1 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7121068 IMAGE-MGC_LOAD
InterPro GOLD_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GOLD_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TMP21-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:289883 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:95001 IMAGE-MGC_LOAD
NCBI Gene 289883 ENTREZGENE
PANTHER PTHR22811 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR22811:SF41 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EMP24_GP25L UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tmed5 PhenoGen
PROSITE GOLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000000073 RatGTEx
SMART EMP24_GP25L UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF101576 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6KPG8 ENTREZGENE, UniProtKB/TrEMBL
  Q6AXN3 ENTREZGENE
  Q6QI88_RAT UniProtKB/TrEMBL
  TMED5_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-19 Tmed5  transmembrane p24 trafficking protein 5  Tmed5  transmembrane emp24 protein transport domain containing 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Tmed5  transmembrane emp24 protein transport domain containing 5  MGC95001  similar to CGI-100-like protein  Symbol and Name updated 1299863 APPROVED
2005-07-29 MGC95001  similar to CGI-100-like protein      Symbol and Name status set to provisional 70820 PROVISIONAL