TMED3 (transmembrane p24 trafficking protein 3) - Rat Genome Database

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Gene: TMED3 (transmembrane p24 trafficking protein 3) Canis lupus familiaris
Analyze
Symbol: TMED3
Name: transmembrane p24 trafficking protein 3
RGD ID: 12112841
Description: INVOLVED IN endoplasmic reticulum to Golgi vesicle-mediated transport (inferred); Golgi organization (inferred); intracellular protein transport (inferred); ASSOCIATED WITH Bloom syndrome (ortholog); colorectal cancer (ortholog); genetic disease (ortholog); FOUND IN COPI vesicle coat (inferred); COPII-coated ER to Golgi transport vesicle (inferred); cytoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: transmembrane emp24 domain-containing protein 3; transmembrane emp24 protein transport domain containing 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1357,832,349 - 57,839,335 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl357,832,352 - 57,839,981 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha360,490,826 - 60,497,703 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0358,267,780 - 58,274,675 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl358,232,053 - 58,274,669 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1357,764,729 - 57,771,616 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0357,972,225 - 57,979,103 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0358,321,136 - 58,328,013 (-)NCBIUU_Cfam_GSD_1.0
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

Biological Process

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
TMED3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1357,832,349 - 57,839,335 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl357,832,352 - 57,839,981 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha360,490,826 - 60,497,703 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0358,267,780 - 58,274,675 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl358,232,053 - 58,274,669 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1357,764,729 - 57,771,616 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0357,972,225 - 57,979,103 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0358,321,136 - 58,328,013 (-)NCBIUU_Cfam_GSD_1.0
TMED3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381579,311,112 - 79,413,886 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1579,311,112 - 79,427,432 (+)EnsemblGRCh38hg38GRCh38
GRCh371579,603,454 - 79,706,228 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361577,390,546 - 77,402,244 (+)NCBINCBI36Build 36hg18NCBI36
Build 341577,390,545 - 77,402,243NCBI
Celera1556,540,059 - 56,551,758 (+)NCBICelera
Cytogenetic Map15q25.1NCBI
HuRef1556,361,742 - 56,373,441 (+)NCBIHuRef
CHM1_11579,721,575 - 79,733,274 (+)NCBICHM1_1
T2T-CHM13v2.01577,174,633 - 77,277,227 (+)NCBIT2T-CHM13v2.0
Tmed3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39989,581,256 - 89,587,096 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl989,581,259 - 89,587,121 (-)EnsemblGRCm39 Ensembl
GRCm38989,699,203 - 89,705,043 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl989,699,206 - 89,705,068 (-)EnsemblGRCm38mm10GRCm38
MGSCv37989,594,041 - 89,599,881 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36989,497,098 - 89,502,884 (-)NCBIMGSCv36mm8
Celera989,316,734 - 89,322,572 (-)NCBICelera
Cytogenetic Map9E3.1NCBI
cM Map947.24NCBI
Tmed3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8899,121,361 - 99,129,653 (-)NCBIGRCr8
mRatBN7.2890,241,516 - 90,249,429 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl890,241,516 - 90,249,346 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx895,907,053 - 95,914,929 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0894,106,260 - 94,114,136 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0891,962,261 - 91,970,146 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0897,075,194 - 97,083,107 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl897,075,160 - 97,083,120 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0896,576,975 - 96,584,888 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4894,590,177 - 94,598,090 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1894,609,632 - 94,617,545 (-)NCBI
Celera889,787,431 - 89,795,344 (-)NCBICelera
Cytogenetic Map8q31NCBI
Tmed3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955533327,044 - 335,030 (+)NCBIChiLan1.0ChiLan1.0
TMED3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21668,565,160 - 68,641,006 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11572,730,839 - 72,806,257 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01558,280,282 - 58,355,677 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11577,238,092 - 77,313,580 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1577,237,664 - 77,313,574 (+)Ensemblpanpan1.1panPan2
Tmed3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640119,630,160 - 119,638,736 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647137,478,097 - 37,486,809 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647137,478,225 - 37,486,795 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMED3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl748,431,375 - 48,442,645 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1748,431,629 - 48,442,247 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2753,970,295 - 53,972,517 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TMED3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1264,069,389 - 4,080,104 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl264,069,150 - 4,080,083 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048137,768,870 - 137,779,630 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmed3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624941406,953 - 418,748 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624941407,043 - 414,667 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TMED3
98 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 19 3 5 3 6 12 10 6
Low 5 3 3 1 3 6 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000046175   ⟹   ENSCAFP00000040358
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl357,832,352 - 57,839,981 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000084864   ⟹   ENSCAFP00000065585
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl357,837,427 - 57,839,981 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845009062   ⟹   ENSCAFP00845007147
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl358,232,053 - 58,274,669 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845009068   ⟹   ENSCAFP00845007152
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl358,265,328 - 58,274,669 (-)Ensembl
RefSeq Acc Id: XM_005618431   ⟹   XP_005618488
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1357,832,349 - 57,839,335 (-)NCBI
Dog10K_Boxer_Tasha360,490,826 - 60,497,703 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038472088   ⟹   XP_038328016
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1357,764,729 - 57,771,616 (-)NCBI
RefSeq Acc Id: XM_038472089   ⟹   XP_038328017
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1357,764,729 - 57,771,616 (-)NCBI
RefSeq Acc Id: XM_038533030   ⟹   XP_038388958
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0358,321,136 - 58,328,013 (-)NCBI
RefSeq Acc Id: XM_038597359   ⟹   XP_038453287
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0357,972,225 - 57,979,103 (-)NCBI
RefSeq Acc Id: XM_038661539   ⟹   XP_038517467
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0358,267,780 - 58,274,675 (-)NCBI
RefSeq Acc Id: XM_038661540   ⟹   XP_038517468
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0358,267,780 - 58,274,675 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_005618488   ⟸   XM_005618431
- Peptide Label: isoform X2
- UniProtKB: A0A8C0KP29 (UniProtKB/TrEMBL),   A0A8I3MWL0 (UniProtKB/TrEMBL),   A0A8P0TN52 (UniProtKB/TrEMBL),   A0A8C0RV14 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000065585   ⟸   ENSCAFT00000084864
RefSeq Acc Id: ENSCAFP00000040358   ⟸   ENSCAFT00000046175
RefSeq Acc Id: XP_038328017   ⟸   XM_038472089
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038328016   ⟸   XM_038472088
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038453287   ⟸   XM_038597359
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038517468   ⟸   XM_038661540
- Peptide Label: isoform X1
- UniProtKB: A0A8C0KP29 (UniProtKB/TrEMBL),   A0A8I3MWL0 (UniProtKB/TrEMBL),   A0A8P0TN52 (UniProtKB/TrEMBL),   A0A8C0RV14 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038517467   ⟸   XM_038661539
- Peptide Label: isoform X2
- UniProtKB: A0A8C0KP29 (UniProtKB/TrEMBL),   A0A8I3MWL0 (UniProtKB/TrEMBL),   A0A8P0TN52 (UniProtKB/TrEMBL),   A0A8C0RV14 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038388958   ⟸   XM_038533030
- Peptide Label: isoform X2
- UniProtKB: A0A8C0KP29 (UniProtKB/TrEMBL),   A0A8C0RV14 (UniProtKB/TrEMBL),   A0A8I3MWL0 (UniProtKB/TrEMBL),   A0A8P0TN52 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845007152   ⟸   ENSCAFT00845009068
RefSeq Acc Id: ENSCAFP00845007147   ⟸   ENSCAFT00845009062
Protein Domains
GOLD

Promoters
RGD ID:13682783
Promoter ID:EPDNEW_C851
Type:initiation region
Name:TMED3_1
Description:transmembrane p24 trafficking protein 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1357,839,265 - 57,839,325EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000031547 Ensembl
  ENSCAFG00000057339 UniProtKB/TrEMBL
  ENSCAFG00040000871 UniProtKB/TrEMBL
  ENSCAFG00845005060 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000084864.2 UniProtKB/TrEMBL
  ENSCAFT00000107315.1 UniProtKB/TrEMBL
  ENSCAFT00040001567.1 UniProtKB/TrEMBL
  ENSCAFT00040001575.1 UniProtKB/TrEMBL
  ENSCAFT00040001579.1 UniProtKB/TrEMBL
  ENSCAFT00845009062.1 UniProtKB/TrEMBL
  ENSCAFT00845009068 ENTREZGENE
  ENSCAFT00845009068.1 UniProtKB/TrEMBL
Gene3D-CATH GOLD domain UniProtKB/TrEMBL
InterPro Emp24-like UniProtKB/TrEMBL
  GOLD_dom UniProtKB/TrEMBL
  GOLD_dom_sf UniProtKB/TrEMBL
NCBI Gene TMED3 ENTREZGENE
PANTHER PTHR22811 UniProtKB/TrEMBL
  TRANSMEMBRANE EMP24 DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
Pfam EMP24_GP25L UniProtKB/TrEMBL
PROSITE GOLD UniProtKB/TrEMBL
SMART EMP24_GP25L UniProtKB/TrEMBL
Superfamily-SCOP SSF101576 UniProtKB/TrEMBL
UniProt A0A8C0KP29 ENTREZGENE
  A0A8C0Q3E2_CANLF UniProtKB/TrEMBL
  A0A8C0RUU8_CANLF UniProtKB/TrEMBL
  A0A8C0RV14 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MWL0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MZ77_CANLF UniProtKB/TrEMBL
  A0A8P0TGY7_CANLF UniProtKB/TrEMBL
  A0A8P0TN52 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:47438 ENTREZGENE