Tmed4 (transmembrane p24 trafficking protein 4) - Rat Genome Database

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Gene: Tmed4 (transmembrane p24 trafficking protein 4) Mus musculus
Analyze
Symbol: Tmed4
Name: transmembrane p24 trafficking protein 4
RGD ID: 1553401
MGI Page MGI
Description: Predicted to enable cargo receptor activity. Predicted to be involved in Golgi organization; endoplasmic reticulum to Golgi vesicle-mediated transport; and intracellular protein transport. Predicted to act upstream of or within protein transport. Predicted to be located in membrane. Predicted to be active in several cellular components, including COPII-coated ER to Golgi transport vesicle; Golgi apparatus; and endoplasmic reticulum-Golgi intermediate compartment. Is expressed in central nervous system and retina. Orthologous to human TMED4 (transmembrane p24 trafficking protein 4).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1110014L17Rik; AI326346; endoplasmic reticulum stress-response protein 25; ERS25; p24 family protein alpha-3; p24alpha3; p26; RP23-198N14.6; transmembrane emp24 domain-containing protein 4; transmembrane emp24 protein transport domain containing 4
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39116,220,714 - 6,224,837 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl116,220,369 - 6,224,870 (-)EnsemblGRCm39 Ensembl
GRCm38116,270,714 - 6,274,837 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl116,270,369 - 6,274,870 (-)EnsemblGRCm38mm10GRCm38
MGSCv37116,170,717 - 6,174,840 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36116,170,717 - 6,174,840 (-)NCBIMGSCv36mm8
Celera116,752,660 - 6,756,791 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map113.94NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:16602821   PMID:18326488  
PMID:21677750   PMID:21873635   PMID:30550785   PMID:31138677  


Genomics

Comparative Map Data
Tmed4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39116,220,714 - 6,224,837 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl116,220,369 - 6,224,870 (-)EnsemblGRCm39 Ensembl
GRCm38116,270,714 - 6,274,837 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl116,270,369 - 6,274,870 (-)EnsemblGRCm38mm10GRCm38
MGSCv37116,170,717 - 6,174,840 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36116,170,717 - 6,174,840 (-)NCBIMGSCv36mm8
Celera116,752,660 - 6,756,791 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map113.94NCBI
TMED4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38744,577,894 - 44,582,231 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl744,577,894 - 44,582,287 (-)EnsemblGRCh38hg38GRCh38
GRCh37744,617,493 - 44,621,830 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36744,585,287 - 44,588,352 (-)NCBINCBI36Build 36hg18NCBI36
Build 34744,392,002 - 44,395,067NCBI
Celera744,717,606 - 44,720,671 (-)NCBICelera
Cytogenetic Map7p13NCBI
HuRef744,503,138 - 44,506,203 (-)NCBIHuRef
CHM1_1744,623,158 - 44,626,223 (-)NCBICHM1_1
T2T-CHM13v2.0744,737,656 - 44,741,987 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2744,658,279 - 44,661,344 (-)NCBI
Tmed4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81485,338,980 - 85,343,577 (-)NCBIGRCr8
mRatBN7.21481,125,049 - 81,129,646 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1481,125,053 - 81,129,631 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1485,525,765 - 85,530,504 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01486,765,848 - 86,770,587 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01483,215,174 - 83,219,913 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01486,390,327 - 86,395,151 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1486,390,338 - 86,395,135 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01487,351,512 - 87,356,335 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41486,997,282 - 87,001,869 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11487,016,423 - 87,021,016 (-)NCBI
Celera1480,007,995 - 80,012,582 (-)NCBICelera
Cytogenetic Map14q21NCBI
Tmed4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554567,500,848 - 7,504,310 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554567,500,848 - 7,504,310 (+)NCBIChiLan1.0ChiLan1.0
TMED4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2649,487,406 - 49,494,805 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1797,811,961 - 97,819,543 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0745,289,666 - 45,297,030 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1745,358,692 - 45,366,036 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl745,361,693 - 45,366,395 (-)Ensemblpanpan1.1panPan2
TMED4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha162,355,451 - 2,357,820 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01614,503,747 - 14,506,117 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1614,503,778 - 14,516,659 (+)EnsemblROS_Cfam_1.0 Ensembl
UNSW_CanFamBas_1.01614,135,234 - 14,137,604 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01614,115,849 - 14,118,219 (+)NCBIUU_Cfam_GSD_1.0
Tmed4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118100,265,967 - 100,270,922 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647819,477,698 - 19,482,706 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647819,477,698 - 19,482,656 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMED4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1850,699,470 - 50,702,705 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11850,698,819 - 50,702,333 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21855,602,126 - 55,605,640 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TMED4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12114,095,120 - 14,099,415 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2114,095,538 - 14,098,321 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660628,431,190 - 8,440,353 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmed4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247407,558,717 - 7,562,517 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247407,549,549 - 7,562,517 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tmed4
108 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:682
Count of miRNA genes:452
Interacting mature miRNAs:531
Transcripts:ENSMUST00000004508, ENSMUST00000130621, ENSMUST00000132147
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357722Vtbt11_mvertebral trabecular bone trait 11 (mouse)Not determined11123880487Mouse
1300768Tshp9_mtooth shape 9 (mouse)Not determined11125976374Mouse
1301765Skull15_mskull morphology 15 (mouse)Not determined11125976374Mouse
1300661Lmr6_mleishmaniasis resistance 6 (mouse)Not determined11125976374Mouse
10044008Hbnr15_mHeligmosomoides bakeri nematode resistance 15 (mouse)Not determined1122705234227232Mouse
1300599Cocrb11_mcocaine related behavior 11 (mouse)Not determined11267035536671472Mouse
27095914Pglq16_mpelvic girdle length QTL 16, 16 week (mouse)11325000018150000Mouse
27095919Pglq10_mpelvic girdle length QTL 10, 10 week (mouse)11325000018450000Mouse
27095925Pglq5_mpelvic girdle length QTL 5, 5 week (mouse)11325000019750000Mouse
27095904Scvln12_msacral vertebrae length 2, 10 week (mouse)11325000034495048Mouse
27095909Scvln6_msacral vertebrae length 2, 5 week (mouse)11325000044090827Mouse
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
10053676Eae44a_mexperimental allergic encephalomyelitis susceptibility 44a (mouse)Not determined11450789621379532Mouse
27226741Metcl5_mmetatarsal-calcaneal length 5, 5 week (mouse)11465000046290827Mouse
27226735Metcl16_mmetatarsal-calcaneal length 16, 16 week (mouse)11525000035090827Mouse

Markers in Region
AI326346  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38116,270,872 - 6,270,956UniSTSGRCm38
MGSCv37116,170,875 - 6,170,959UniSTSGRCm37
Celera116,752,818 - 6,752,902UniSTS
Cytogenetic Map11A1UniSTS
Whitehead/MRC_RH1132.63UniSTS
UniSTS:236516  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38116,270,459 - 6,270,690UniSTSGRCm38
GRCm38327,013,850 - 27,014,091UniSTSGRCm38
MGSCv37116,170,462 - 6,170,693UniSTSGRCm37
MGSCv37326,912,772 - 26,913,013UniSTSGRCm37
Celera116,752,405 - 6,752,636UniSTS
Celera326,985,071 - 26,985,313UniSTS
Cytogenetic Map11A1UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_134020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF368921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK003613 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK078425 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK158876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK182125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK184055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK186607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK204643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK211429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK213586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK213999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK218753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK219991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL607152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC023041 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466574 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSMUST00000004508   ⟹   ENSMUSP00000004508
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl116,220,369 - 6,224,870 (-)Ensembl
GRCm38.p6 Ensembl116,270,369 - 6,274,870 (-)Ensembl
RefSeq Acc Id: ENSMUST00000130621
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl116,221,661 - 6,224,870 (-)Ensembl
GRCm38.p6 Ensembl116,271,661 - 6,274,870 (-)Ensembl
RefSeq Acc Id: ENSMUST00000132147   ⟹   ENSMUSP00000121643
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl116,223,741 - 6,224,865 (-)Ensembl
GRCm38.p6 Ensembl116,273,741 - 6,274,865 (-)Ensembl
RefSeq Acc Id: NM_134020   ⟹   NP_598781
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39116,220,714 - 6,224,837 (-)NCBI
GRCm38116,270,714 - 6,274,837 (-)ENTREZGENE
MGSCv37116,170,717 - 6,174,840 (-)RGD
Celera116,752,660 - 6,756,791 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_598781   ⟸   NM_134020
- Peptide Label: precursor
- UniProtKB: Q3TY55 (UniProtKB/Swiss-Prot),   Q8R1V4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000121643   ⟸   ENSMUST00000132147
RefSeq Acc Id: ENSMUSP00000004508   ⟸   ENSMUST00000004508
Protein Domains
GOLD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8R1V4-F1-model_v2 AlphaFold Q8R1V4 1-227 view protein structure

Promoters
RGD ID:6822330
Promoter ID:MM_KWN:6354
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000001525,   OTTMUST00000001526,   OTTMUST00000001527
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36116,174,649 - 6,175,149 (-)MPROMDB
RGD ID:8673892
Promoter ID:EPDNEW_M14976
Type:initiation region
Name:Tmed4_1
Description:Mus musculus transmembrane p24 trafficking protein 4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38116,274,847 - 6,274,907EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1915070 AgrOrtholog
Ensembl Genes ENSMUSG00000004394 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000004508 ENTREZGENE
  ENSMUST00000004508.13 UniProtKB/Swiss-Prot
  ENSMUST00000132147.3 UniProtKB/TrEMBL
InterPro GOLD_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TMP21-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:103694 UniProtKB/Swiss-Prot
MGD MGI:1915070 ENTREZGENE
NCBI Gene 103694 ENTREZGENE
PANTHER PTHR22811 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSMEMBRANE EMP24 DOMAIN-CONTAINING PROTEIN 4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EMP24_GP25L UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tmed4 PhenoGen
PROSITE GOLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART EMP24_GP25L UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt Q3TY55 ENTREZGENE
  Q5SVW9_MOUSE UniProtKB/TrEMBL
  Q8R1V4 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3TY55 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-10-04 Tmed4  transmembrane p24 trafficking protein 4    transmembrane emp24 protein transport domain containing 4  Symbol and/or name change 5135510 APPROVED