Mydgf (myeloid-derived growth factor) - Rat Genome Database

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Gene: Mydgf (myeloid-derived growth factor) Rattus norvegicus
Analyze
Symbol: Mydgf
Name: myeloid-derived growth factor
RGD ID: 1589603
Description: Predicted to be involved in several processes, including positive regulation of endothelial cell proliferation; positive regulation of intracellular signal transduction; and positive regulation of nitrogen compound metabolic process. Predicted to be located in Golgi apparatus; endoplasmic reticulum; and extracellular region. Predicted to be active in extracellular space. Orthologous to human MYDGF (myeloid derived growth factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC501282; similar to lymphocyte antigen 6 complex, locus E ligand
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
GRCr891,086,825 - 1,095,968 (-)NCBIGRCr8
mRatBN7.29999,659 - 1,008,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,000,722 - 1,008,822 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,445,804 - 1,454,958 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,793,334 - 6,802,477 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,750,841 - 5,759,995 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,885,521 - 10,892,744 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,885,560 - 10,892,405 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,874,640 - 9,881,948 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,498,760 - 7,507,897 (+)NCBICelera
Cytogenetic Map9q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
COVID-19  (ISO)
genetic disease  (ISO)
Keloid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. IL-25 enhances HSV-1 replication by inhibiting filaggrin expression, and acts synergistically with Th2 cytokines to enhance HSV-1 replication. Kim BE, etal., J Invest Dermatol. 2013 Dec;133(12):2678-2685. doi: 10.1038/jid.2013.223. Epub 2013 May 8.
3. Role of Eosinophils and Tumor Necrosis Factor Alpha in Interleukin-25-Mediated Protection from Amebic Colitis. Noor Z, etal., mBio. 2017 Feb 28;8(1). pii: mBio.02329-16. doi: 10.1128/mBio.02329-16.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14743498   PMID:15378209   PMID:16606667   PMID:19081304   PMID:19118508   PMID:20490892   PMID:20974983   PMID:22543263   PMID:23376485   PMID:23935505   PMID:24006456   PMID:24910174  
PMID:25273095   PMID:25581518   PMID:27055194   PMID:27620722   PMID:28701507   PMID:28717211   PMID:29054692   PMID:29954947   PMID:30948177   PMID:31075222  


Genomics

Comparative Map Data
Mydgf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,086,825 - 1,095,968 (-)NCBIGRCr8
mRatBN7.29999,659 - 1,008,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,000,722 - 1,008,822 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,445,804 - 1,454,958 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,793,334 - 6,802,477 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,750,841 - 5,759,995 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,885,521 - 10,892,744 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,885,560 - 10,892,405 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,874,640 - 9,881,948 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,498,760 - 7,507,897 (+)NCBICelera
Cytogenetic Map9q11NCBI
MYDGF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38194,657,545 - 4,670,342 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl194,641,374 - 4,670,362 (-)EnsemblGRCh38hg38GRCh38
GRCh37194,657,557 - 4,670,354 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,608,557 - 4,621,415 (-)NCBINCBI36Build 36hg18NCBI36
Celera194,594,232 - 4,607,089 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef194,417,713 - 4,430,528 (-)NCBIHuRef
CHM1_1194,657,390 - 4,670,203 (-)NCBICHM1_1
T2T-CHM13v2.0194,641,702 - 4,654,500 (-)NCBIT2T-CHM13v2.0
Mydgf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391756,483,541 - 56,490,920 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1756,482,744 - 56,490,920 (-)EnsemblGRCm39 Ensembl
GRCm381756,176,541 - 56,183,920 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1756,175,744 - 56,183,920 (-)EnsemblGRCm38mm10GRCm38
MGSCv371756,315,964 - 56,323,343 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361755,810,250 - 55,817,629 (-)NCBIMGSCv36mm8
MGSCv361755,235,815 - 55,243,194 (-)NCBIMGSCv36mm8
Cytogenetic Map17DNCBI
cM Map1729.2NCBI
Mydgf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554954,320,540 - 4,330,921 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554954,320,532 - 4,330,921 (+)NCBIChiLan1.0ChiLan1.0
MYDGF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2209,048,569 - 9,063,777 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1198,275,594 - 8,293,562 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0193,674,001 - 3,689,123 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1194,624,086 - 4,639,608 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl194,627,108 - 4,639,608 (-)Ensemblpanpan1.1panPan2
MYDGF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12055,084,060 - 55,096,544 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2055,084,059 - 55,096,241 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2054,808,304 - 54,820,794 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02055,738,281 - 55,750,767 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12054,799,762 - 54,812,243 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02055,280,236 - 55,292,728 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02055,478,281 - 55,490,771 (+)NCBIUU_Cfam_GSD_1.0
Mydgf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118215,118,232 - 215,128,454 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365882,706,667 - 2,716,503 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365882,706,329 - 2,716,545 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MYDGF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl274,185,060 - 74,202,301 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1274,185,042 - 74,202,306 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
MYDGF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.164,382,659 - 4,389,712 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660813,786,010 - 3,798,018 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mydgf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248285,115,273 - 5,124,185 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248285,115,263 - 5,127,043 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mydgf
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:379
Count of miRNA genes:238
Interacting mature miRNAs:286
Transcripts:ENSRNOT00000072870
Prediction methods:Microtar, Miranda, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat

Markers in Region
D17Wsu104e  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.291,001,547 - 1,001,778 (-)MAPPERmRatBN7.2
Rnor_6.0910,892,513 - 10,892,743NCBIRnor6.0
Rnor_5.099,881,624 - 9,881,854UniSTSRnor5.0
Celera97,505,778 - 7,506,008UniSTS
RH129812  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.291,001,586 - 1,001,773 (-)MAPPERmRatBN7.2
Rnor_6.0910,892,518 - 10,892,704NCBIRnor6.0
Rnor_5.099,881,629 - 9,881,815UniSTSRnor5.0
Celera97,505,783 - 7,505,969UniSTS
MARC_4447-4448:966894303:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.291,001,913 - 1,003,230 (-)MAPPERmRatBN7.2
Rnor_6.0910,891,060 - 10,892,377NCBIRnor6.0
Rnor_5.099,880,171 - 9,881,488UniSTSRnor5.0


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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000072870   ⟹   ENSRNOP00000064027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,001,553 - 1,008,790 (-)Ensembl
Rnor_6.0 Ensembl910,885,560 - 10,892,405 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102363   ⟹   ENSRNOP00000082189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,000,722 - 1,008,822 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111584   ⟹   ENSRNOP00000077753
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,000,722 - 1,008,785 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116276   ⟹   ENSRNOP00000077212
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,000,724 - 1,007,907 (-)Ensembl
RefSeq Acc Id: NM_001399360   ⟹   NP_001386289
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,086,825 - 1,095,968 (-)NCBI
mRatBN7.29999,659 - 1,008,804 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001386289 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064027.3
  ENSRNOP00000077212.1
  ENSRNOP00000077753.1
  ENSRNOP00000082189
  ENSRNOP00000082189.1
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000064027   ⟸   ENSRNOT00000072870
RefSeq Acc Id: ENSRNOP00000077212   ⟸   ENSRNOT00000116276
RefSeq Acc Id: ENSRNOP00000077753   ⟸   ENSRNOT00000111584
RefSeq Acc Id: ENSRNOP00000082189   ⟸   ENSRNOT00000102363
RefSeq Acc Id: NP_001386289   ⟸   NM_001399360
- Peptide Label: precursor
- UniProtKB: A0A8I5ZTQ0 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R3V4-F1-model_v2 AlphaFold M0R3V4 1-166 view protein structure

Transcriptome

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

Promoters
RGD ID:13696475
Promoter ID:EPDNEW_R6991
Type:multiple initiation site
Name:Mydgf_1
Description:myeloid-derived growth factor
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_6.0910,885,543 - 10,885,603EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589603 AgrOrtholog
BioCyc Gene G2FUF-28555 BioCyc
Ensembl Genes ENSRNOG00000046883 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072870.3 UniProtKB/TrEMBL
  ENSRNOT00000102363 ENTREZGENE
  ENSRNOT00000102363.1 UniProtKB/TrEMBL
  ENSRNOT00000111584.1 UniProtKB/TrEMBL
  ENSRNOT00000116276.1 UniProtKB/TrEMBL
InterPro UPF0556 UniProtKB/TrEMBL
NCBI Gene 501282 ENTREZGENE
PANTHER MYELOID-DERIVED GROWTH FACTOR UniProtKB/TrEMBL
  PTHR31230 UniProtKB/TrEMBL
Pfam UPF0556 UniProtKB/TrEMBL
PhenoGen Mydgf PhenoGen
RatGTEx ENSRNOG00000046883 RatGTEx
UniProt A0A8I5YC95_RAT UniProtKB/TrEMBL
  A0A8I5YCH2_RAT UniProtKB/TrEMBL
  A0A8I5ZTQ0 ENTREZGENE, UniProtKB/TrEMBL
  M0R3V4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-04-17 Mydgf  myeloid-derived growth factor  LOC501282  similar to lymphocyte antigen 6 complex, locus E ligand  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC501282  similar to lymphocyte antigen 6 complex, locus E ligand      Symbol and Name status set to provisional 70820 PROVISIONAL