MDK (midkine) - Rat Genome Database

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Gene: MDK (midkine) Sus scrofa
Analyze
Symbol: MDK
Name: midkine
RGD ID: 14059501
Description: ENCODES a protein that exhibits chondroitin sulfate binding (inferred); growth factor activity (inferred); heparan sulfate binding (inferred); INVOLVED IN adrenal gland development (ortholog); cell migration (ortholog); cerebral cortex development (ortholog); PARTICIPATES IN glypican signaling pathway; syndecan signaling pathway; ASSOCIATED WITH anxiety disorder (ortholog); brain infarction (ortholog); brain ischemia (ortholog); FOUND IN cell projection (ortholog); cytoplasm (ortholog); INTERACTS WITH chondroitin sulfate; dermatan sulfate
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: midkine (neurite growth-promoting factor 2)
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl216,130,782 - 16,133,510 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1216,130,787 - 16,133,791 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2217,476,834 - 17,479,834 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adrenal gland development  (ISO)
behavioral fear response  (IEA)
cell migration  (ISO)
cerebellar granular layer development  (IEA)
cerebral cortex development  (IEA,ISO)
cytoskeleton organization  (IEA)
defecation  (IEA)
dentate gyrus development  (IEA,ISO)
estrous cycle  (IEA)
glial cell projection elongation  (IEA)
hippocampus development  (ISO)
leukocyte chemotaxis involved in inflammatory response  (IEA)
negative regulation of canonical Wnt signaling pathway  (IEA)
negative regulation of cardiac muscle cell apoptotic process  (IEA)
negative regulation of cell adhesion  (ISO)
negative regulation of epithelial cell apoptotic process  (IEA)
negative regulation of inflammatory response to wounding  (IEA)
negative regulation of neuron apoptotic process  (IEA)
negative regulation of neuron death  (ISO)
negative regulation of ossification  (IEA)
negative regulation of regulatory T cell differentiation  (IEA)
oogenesis  (IEA)
positive regulation of artery morphogenesis  (IEA)
positive regulation of blood vessel branching  (IEA)
positive regulation of cartilage development  (IEA)
positive regulation of cell adhesion  (ISO)
positive regulation of cell division  (IEA)
positive regulation of cell migration  (ISO)
positive regulation of epithelial to mesenchymal transition  (IEA)
positive regulation of hepatocyte proliferation  (IEA)
positive regulation of inflammatory response  (ISO)
positive regulation of inflammatory response to wounding  (IEA)
positive regulation of interleukin-12 production  (IEA)
positive regulation of keratinocyte proliferation  (IEA)
positive regulation of leukocyte adhesion to vascular endothelial cell  (IEA)
positive regulation of leukocyte cell-cell adhesion  (ISO)
positive regulation of leukocyte chemotaxis  (ISO)
positive regulation of macrophage chemotaxis  (IEA)
positive regulation of neural precursor cell proliferation  (IEA)
positive regulation of neuron migration  (IEA)
positive regulation of neuron projection development  (IEA)
positive regulation of neutrophil chemotaxis  (IEA)
positive regulation of neutrophil extravasation  (IEA)
positive regulation of oligodendrocyte differentiation  (IEA)
positive regulation of smooth muscle cell chemotaxis  (IEA)
positive regulation of substrate adhesion-dependent cell spreading  (IEA)
positive regulation of T cell differentiation  (IEA)
positive regulation of transcription, DNA-templated  (IEA)
positive regulation of vascular endothelial cell proliferation  (IEA)
regulation of actin cytoskeleton reorganization  (IEA)
regulation of behavior  (IEA)
regulation of bone remodeling  (IEA)
regulation of chondrocyte differentiation  (IEA)
response to auditory stimulus  (IEA)
response to drug  (ISO)
response to glucocorticoid  (ISO)
response to hormone  (ISO)
response to wounding  (IEA)
short-term memory  (IEA)
signal transduction  (IEA)
T cell activation involved in immune response  (IEA)
tissue regeneration  (IEA)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:15679890   PMID:17145712   PMID:22564978  


Genomics

Comparative Map Data
MDK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl216,130,782 - 16,133,510 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1216,130,787 - 16,133,791 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2217,476,834 - 17,479,834 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MDK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1146,380,756 - 46,383,837 (+)EnsemblGRCh38hg38GRCh38
GRCh381146,380,784 - 46,383,837 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371146,402,334 - 46,405,387 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361146,359,194 - 46,361,951 (+)NCBINCBI36hg18NCBI36
Build 341146,359,794 - 46,361,950NCBI
Celera1146,550,196 - 46,552,952 (+)NCBI
Cytogenetic Map11p11.2NCBI
HuRef1146,109,292 - 46,112,345 (+)NCBIHuRef
CHM1_11146,400,770 - 46,403,840 (+)NCBICHM1_1
Mdk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39291,760,150 - 91,762,642 (-)NCBIGRCm39mm39
GRCm39 Ensembl291,760,150 - 91,762,642 (-)Ensembl
GRCm38291,929,805 - 91,932,297 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl291,929,805 - 91,932,297 (-)EnsemblGRCm38mm10GRCm38
MGSCv37291,769,978 - 91,772,439 (-)NCBIGRCm37mm9NCBIm37
MGSCv36291,730,660 - 91,733,121 (-)NCBImm8
Celera293,320,223 - 93,322,680 (-)NCBICelera
Cytogenetic Map2E1NCBI
cM Map250.63NCBI
Mdk
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2377,901,156 - 77,903,997 (-)NCBI
Rnor_6.0 Ensembl380,841,005 - 80,842,916 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0380,841,003 - 80,843,895 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0387,539,671 - 87,542,415 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4376,309,988 - 76,311,345 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1376,206,095 - 76,208,044 (-)NCBI
Celera377,104,074 - 77,105,431 (-)NCBICelera
Cytogenetic Map3q24NCBI
Mdk
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554221,655,358 - 1,657,044 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554221,655,351 - 1,657,026 (-)NCBIChiLan1.0ChiLan1.0
MDK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11146,890,151 - 46,893,318 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1146,891,540 - 46,893,254 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01146,339,365 - 46,342,388 (+)NCBIMhudiblu_PPA_v0panPan3
LOC491316
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1955,100,491 - 55,101,081 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha954,295,784 - 54,296,356 (+)NCBI
ROS_Cfam_1.0956,022,875 - 56,023,626 (+)NCBI
UMICH_Zoey_3.1954,782,276 - 54,783,027 (+)NCBI
UNSW_CanFamBas_1.0955,096,747 - 55,097,319 (+)NCBI
UU_Cfam_GSD_1.0955,188,655 - 55,189,227 (+)NCBI
Mdk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494720,576,217 - 20,578,924 (-)NCBI
SpeTri2.0NW_0049365622,687,825 - 2,690,292 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MDK
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1118,945,355 - 18,948,394 (-)NCBI
ChlSab1.1 Ensembl118,946,378 - 18,947,134 (-)Ensembl
Vero_WHO_p1.0NW_023666038116,230,790 - 116,233,817 (-)NCBI
Mdk
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247672,171,096 - 2,173,436 (-)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 7 2 3 5 15 3 1
Low 3 2 2 8 2 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000014484   ⟹   ENSSSCP00000014092
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl216,130,809 - 16,132,912 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000046360   ⟹   ENSSSCP00000059415
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl216,130,782 - 16,133,510 (-)Ensembl
RefSeq Acc Id: NM_001195352   ⟹   NP_001182281
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1216,130,809 - 16,132,863 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005660938   ⟹   XP_005660995
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1216,130,787 - 16,133,263 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005660939   ⟹   XP_005660996
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1216,130,787 - 16,133,778 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005660940   ⟹   XP_005660997
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1216,130,787 - 16,133,791 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001182281 (Get FASTA)   NCBI Sequence Viewer  
  XP_005660995 (Get FASTA)   NCBI Sequence Viewer  
  XP_005660996 (Get FASTA)   NCBI Sequence Viewer  
  XP_005660997 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ADC38911 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005660997   ⟸   XM_005660940
- Peptide Label: isoform X2
- UniProtKB: D3K5N3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005660996   ⟸   XM_005660939
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005660995   ⟸   XM_005660938
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001182281   ⟸   NM_001195352
- Peptide Label: precursor
- UniProtKB: D3K5N3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000059415   ⟸   ENSSSCT00000046360
RefSeq Acc Id: ENSSSCP00000014092   ⟸   ENSSSCT00000014484
Protein Domains
PTN_MK_C   PTN_MK_N


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000013260 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000014092 UniProtKB/TrEMBL
  ENSSSCP00000059415 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000014484 UniProtKB/TrEMBL
  ENSSSCT00000046360 UniProtKB/TrEMBL
Gene3D-CATH 2.20.60.10 UniProtKB/TrEMBL
  2.30.90.10 UniProtKB/TrEMBL
InterPro Midkine_heparin-bd_GF UniProtKB/TrEMBL
  PTN/MK_C_dom UniProtKB/TrEMBL
  PTN/MK_C_dom_sf UniProtKB/TrEMBL
  PTN/MK_diS_sf UniProtKB/TrEMBL
  PTN/MK_N_dom UniProtKB/TrEMBL
  PTN/MK_N_dom_sf UniProtKB/TrEMBL
  PTN_MK_heparin-bd_GF_CS UniProtKB/TrEMBL
KEGG Report ssc:100359358 UniProtKB/TrEMBL
NCBI Gene MDK ENTREZGENE
PANTHER PTHR13850 UniProtKB/TrEMBL
Pfam PTN_MK_C UniProtKB/TrEMBL
  PTN_MK_N UniProtKB/TrEMBL
PRINTS PTNMIDKINE UniProtKB/TrEMBL
PROSITE PTN_MK_1 UniProtKB/TrEMBL
  PTN_MK_2 UniProtKB/TrEMBL
SMART PTN UniProtKB/TrEMBL
Superfamily-SCOP SSF57288 UniProtKB/TrEMBL
UniProt A0A287BRY9_PIG UniProtKB/TrEMBL
  D3K5N3 ENTREZGENE, UniProtKB/TrEMBL
  F6Q6H5_PIG UniProtKB/TrEMBL
VGNC ID VGNC:100167 ENTREZGENE