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 angiogenesis; positive regulation of endothelial cell proliferation; and positive regulation of intracellular signal transduction. 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,086,825 - 1,095,968 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl91,086,825 - 1,095,968 (-)EnsemblGRCr8
mRatBN7.29999,659 - 1,008,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,000,722 - 1,008,822 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx91,445,804 - 1,454,958 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,793,334 - 6,802,477 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,750,841 - 5,759,995 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,885,521 - 10,892,744 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,885,560 - 10,892,405 (+)Ensemblrn6Rnor6.0
Rnor_5.099,874,640 - 9,881,948 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera97,498,760 - 7,507,897 (+)NCBICelera
Cytogenetic Map9q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View
COVID-19  (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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl91,086,825 - 1,095,968 (-)EnsemblGRCr8
mRatBN7.29999,659 - 1,008,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,000,722 - 1,008,822 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx91,445,804 - 1,454,958 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,793,334 - 6,802,477 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,750,841 - 5,759,995 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,885,521 - 10,892,744 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,885,560 - 10,892,405 (+)Ensemblrn6Rnor6.0
Rnor_5.099,874,640 - 9,881,948 (+)NCBIRnor_5.0Rnor_5.0rn5
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 - 4,670,365 (-)Ensemblhg38GRCh38
GRCh37194,657,557 - 4,670,354 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,608,557 - 4,621,415 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm381756,176,541 - 56,183,920 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1756,175,744 - 56,183,920 (-)Ensemblmm10GRCm38
MGSCv371756,315,964 - 56,323,343 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2054,808,304 - 54,820,794 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02055,738,281 - 55,750,767 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248285,115,263 - 5,127,043 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Mydgf
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1487,560,150 - 87,568,865 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Mydgf
21 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631533Iresp3Immunoglobin response QTL316.2blood immunoglobulin E amount (VT:0002492)serum immunoglobulin E level (CMO:0002101)916094576Rat
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9121707400Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)949664545496645Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)949664545496645Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)9131250552Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)949664545496645Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9141763315Rat

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

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 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl 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
Ensembl Acc Id: ENSRNOT00000102363   ⟹   ENSRNOP00000082189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl91,086,825 - 1,095,968 (-)Ensembl
mRatBN7.2 Ensembl91,000,722 - 1,008,822 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000111584   ⟹   ENSRNOP00000077753
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl91,086,825 - 1,095,949 (-)Ensembl
mRatBN7.2 Ensembl91,000,722 - 1,008,785 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000116276   ⟹   ENSRNOP00000077212
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl91,086,825 - 1,095,949 (-)Ensembl
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 ENSRNOP00000077212.2
  ENSRNOP00000077753.1
  ENSRNOP00000082189
  ENSRNOP00000082189.2
Ensembl Acc Id: ENSRNOP00000064027   ⟸   ENSRNOT00000072870
Ensembl Acc Id: ENSRNOP00000077212   ⟸   ENSRNOT00000116276
Ensembl Acc Id: ENSRNOP00000077753   ⟸   ENSRNOT00000111584
Ensembl 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 ENSRNOT00000102363 ENTREZGENE
  ENSRNOT00000102363.2 UniProtKB/TrEMBL
  ENSRNOT00000111584.2 UniProtKB/TrEMBL
  ENSRNOT00000116276.2 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


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