Mdga2 (MAM domain containing glycosylphosphatidylinositol anchor 2) - Rat Genome Database

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Gene: Mdga2 (MAM domain containing glycosylphosphatidylinositol anchor 2) Rattus norvegicus
Analyze
Symbol: Mdga2
Name: MAM domain containing glycosylphosphatidylinositol anchor 2
RGD ID: 735131
Description: Involved in spinal cord motor neuron differentiation. Predicted to localize to GABA-ergic synapse and glutamatergic synapse. Orthologous to human MDGA2 (MAM domain containing glycosylphosphatidylinositol anchor 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; androgen antagonist.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: MAM domain-containing glycosylphosphatidylinositol anchor protein 2; MAM domain-containing protein 1; Mamdc1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2684,746,422 - 85,608,640 (-)NCBI
Rnor_6.0 Ensembl688,447,749 - 88,917,070 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0688,442,620 - 89,292,454 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0697,916,163 - 98,773,394 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4688,155,407 - 89,020,699 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1688,158,867 - 89,024,155 (-)NCBI
Celera683,298,219 - 84,140,941 (-)NCBICelera
Cytogenetic Map6q24NCBI
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

References

Additional References at PubMed
PMID:1633717   PMID:23248271   PMID:25162227   PMID:27608760  


Genomics

Comparative Map Data
Mdga2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2684,746,422 - 85,608,640 (-)NCBI
Rnor_6.0 Ensembl688,447,749 - 88,917,070 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0688,442,620 - 89,292,454 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0697,916,163 - 98,773,394 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4688,155,407 - 89,020,699 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1688,158,867 - 89,024,155 (-)NCBI
Celera683,298,219 - 84,140,941 (-)NCBICelera
Cytogenetic Map6q24NCBI
MDGA2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1446,839,629 - 47,675,605 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1446,840,092 - 47,675,605 (-)EnsemblGRCh38hg38GRCh38
GRCh381446,836,518 - 47,675,605 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371447,308,826 - 48,144,157 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361446,379,045 - 46,882,145 (-)NCBINCBI36hg18NCBI36
Build 341446,379,045 - 46,882,145NCBI
Celera1427,169,381 - 28,004,719 (-)NCBI
Cytogenetic Map14q21.3NCBI
HuRef1427,426,615 - 28,261,881 (-)NCBIHuRef
CHM1_11447,247,613 - 48,082,719 (-)NCBICHM1_1
Mdga2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391266,512,832 - 67,269,323 (-)NCBIGRCm39mm39
GRCm39 Ensembl1266,512,834 - 67,269,323 (-)Ensembl
GRCm381266,459,419 - 67,222,549 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1266,466,060 - 67,222,549 (-)EnsemblGRCm38mm10GRCm38
MGSCv371267,572,169 - 68,322,190 (-)NCBIGRCm37mm9NCBIm37
MGSCv361267,389,787 - 68,139,808 (-)NCBImm8
Celera1267,602,561 - 68,352,775 (-)NCBICelera
Cytogenetic Map12C2NCBI
cM Map1227.63NCBI
Mdga2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540914,684,611 - 15,449,388 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540914,684,252 - 15,449,388 (+)NCBIChiLan1.0ChiLan1.0
MDGA2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11445,752,214 - 46,584,148 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1445,752,214 - 46,583,991 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01427,434,904 - 28,274,969 (-)NCBIMhudiblu_PPA_v0panPan3
MDGA2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1823,827,284 - 24,608,003 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl823,832,475 - 24,607,866 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha823,644,302 - 23,948,023 (-)NCBI
ROS_Cfam_1.0823,992,881 - 24,785,403 (-)NCBI
UMICH_Zoey_3.1823,651,714 - 24,434,692 (-)NCBI
UNSW_CanFamBas_1.0823,720,107 - 24,501,367 (-)NCBI
UU_Cfam_GSD_1.0824,049,174 - 24,831,369 (-)NCBI
Mdga2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864055,878,524 - 56,640,257 (-)NCBI
SpeTri2.0NW_0049365832,048,655 - 2,804,135 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MDGA2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1176,770,047 - 177,593,677 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11176,770,045 - 177,595,012 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21196,939,349 - 197,065,369 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MDGA2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12423,853,710 - 24,705,276 (-)NCBI
ChlSab1.1 Ensembl2423,856,533 - 24,318,531 (-)Ensembl
Mdga2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473120,951,651 - 21,760,267 (+)NCBI

Position Markers
D6Rat104  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2685,311,061 - 85,311,189 (+)MAPPER
Rnor_6.0688,996,335 - 88,996,462NCBIRnor6.0
Rnor_5.0698,477,922 - 98,478,049UniSTSRnor5.0
RGSC_v3.4688,723,450 - 88,723,578RGDRGSC3.4
RGSC_v3.4688,723,451 - 88,723,578UniSTSRGSC3.4
RGSC_v3.1688,726,906 - 88,727,034RGD
Celera683,844,029 - 83,844,156UniSTS
SHRSP x BN Map652.2299UniSTS
SHRSP x BN Map652.2299RGD
FHH x ACI Map662.43RGD
Cytogenetic Map6q24UniSTS
D6Got104  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2684,981,008 - 84,981,246 (+)MAPPER
Rnor_6.0688,671,358 - 88,671,595NCBIRnor6.0
Rnor_5.0698,152,816 - 98,153,053UniSTSRnor5.0
RGSC_v3.4688,391,205 - 88,391,443RGDRGSC3.4
RGSC_v3.4688,391,206 - 88,391,443UniSTSRGSC3.4
RGSC_v3.1688,394,662 - 88,394,899RGD
Celera683,515,888 - 83,516,125UniSTS
RH 3.4 Map6582.7UniSTS
RH 3.4 Map6582.7RGD
RH 2.0 Map6810.0RGD
Cytogenetic Map6q24UniSTS
D6Got103  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2685,094,333 - 85,094,590 (+)MAPPER
Rnor_6.0688,780,298 - 88,780,554NCBIRnor6.0
Rnor_5.0698,261,756 - 98,262,012UniSTSRnor5.0
RGSC_v3.4688,504,522 - 88,504,779RGDRGSC3.4
RGSC_v3.4688,504,523 - 88,504,779UniSTSRGSC3.4
RGSC_v3.1688,507,979 - 88,508,235RGD
Celera683,627,621 - 83,627,877UniSTS
RH 3.4 Map6591.5UniSTS
RH 3.4 Map6591.5RGD
RH 2.0 Map6817.4RGD
Cytogenetic Map6q24UniSTS
RH144396  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2685,008,859 - 85,009,117 (+)MAPPER
Rnor_6.0688,697,746 - 88,698,003NCBIRnor6.0
Rnor_5.0698,179,204 - 98,179,461UniSTSRnor5.0
RGSC_v3.4688,419,054 - 88,419,311UniSTSRGSC3.4
Celera683,542,661 - 83,542,918UniSTS
RH 3.4 Map6580.3UniSTS
Cytogenetic Map6q24UniSTS
RH144515  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2685,212,323 - 85,212,562 (+)MAPPER
Rnor_6.0688,898,084 - 88,898,322NCBIRnor6.0
Rnor_5.0698,380,320 - 98,380,558UniSTSRnor5.0
RGSC_v3.4688,623,384 - 88,623,622UniSTSRGSC3.4
Celera683,745,608 - 83,745,846UniSTS
RH 3.4 Map6577.4UniSTS
Cytogenetic Map6q24UniSTS
AW530832  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2684,766,737 - 84,766,908 (+)MAPPER
Rnor_6.0688,452,546 - 88,452,716NCBIRnor6.0
Rnor_5.0697,936,381 - 97,936,551UniSTSRnor5.0
RGSC_v3.4688,160,239 - 88,160,409UniSTSRGSC3.4
Celera683,303,051 - 83,303,221UniSTS
RH 3.4 Map6587.3UniSTS
Cytogenetic Map6q24UniSTS
RH138320  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2685,388,051 - 85,388,177 (+)MAPPER
Rnor_6.0689,072,354 - 89,072,479NCBIRnor6.0
Rnor_5.0698,553,941 - 98,554,066UniSTSRnor5.0
RGSC_v3.4688,800,671 - 88,800,796UniSTSRGSC3.4
Celera683,921,238 - 83,921,363UniSTS
Cytogenetic Map6q24UniSTS
Satt124  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2685,582,214 - 85,583,701 (+)MAPPER
mRatBN7.2685,582,214 - 85,583,702 (+)MAPPER
Rnor_6.0689,266,013 - 89,267,500NCBIRnor6.0
Rnor_6.0689,266,013 - 89,267,499NCBIRnor6.0
Rnor_5.0698,747,313 - 98,748,800UniSTSRnor5.0
Rnor_5.0698,747,313 - 98,748,799UniSTSRnor5.0
RGSC_v3.4688,994,685 - 88,996,171UniSTSRGSC3.4
RGSC_v3.4688,994,685 - 88,996,172UniSTSRGSC3.4
Celera684,114,943 - 84,116,424UniSTS
Celera684,114,943 - 84,116,423UniSTS
Cytogenetic Map6q24UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)62537030111715717Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)67009971115379601Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)648432758108268790Rat
4889848Pur25Proteinuria QTL 25140.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)65980306594001333Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)660606431108154445Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)660606431108154445Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)662263348107263348Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)666129520111129520Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)671206251116206251Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)675449871120449871Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)675623277120276465Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)675623277120623277Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)675623277136143011Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)675623277136426962Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)675623393136142742Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)675623393136142742Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)676902247114203334Rat
2293837Kiddil1Kidney dilation QTL 13.7kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)684763275108464097Rat
2293842Kiddil3Kidney dilation QTL 34.3kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)684763275108464097Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)686422697115379601Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)687418448111129520Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)688507712133507712Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)688996335139410483Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:68
Count of miRNA genes:59
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000000767
Prediction methods:Microtar, 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.


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 42 3
Low 1 8 4 6 4 30 17 34 11
Below cutoff 2 34 21 12 10 12 8 9 2 14 4 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000767   ⟹   ENSRNOP00000000767
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl688,447,749 - 88,917,070 (-)Ensembl
RefSeq Acc Id: NM_199269   ⟹   NP_954890
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2684,761,906 - 85,608,231 (-)NCBI
Rnor_6.0688,447,714 - 89,292,027 (-)NCBI
Rnor_5.0697,916,163 - 98,773,394 (-)NCBI
RGSC_v3.4688,155,407 - 89,020,699 (-)RGD
Celera683,298,219 - 84,140,941 (-)RGD
Sequence:
RefSeq Acc Id: XM_008764688   ⟹   XP_008762910
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2684,746,422 - 85,608,638 (-)NCBI
Rnor_6.0688,442,620 - 89,292,453 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594136   ⟹   XP_017449625
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0688,452,723 - 89,292,454 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039112248   ⟹   XP_038968176
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2684,767,112 - 85,608,640 (-)NCBI
RefSeq Acc Id: XM_039112249   ⟹   XP_038968177
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2684,746,422 - 85,035,480 (-)NCBI
RefSeq Acc Id: XR_001838167
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2684,746,422 - 85,608,638 (-)NCBI
Rnor_6.0688,442,620 - 89,292,453 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001838168
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2684,746,422 - 85,608,638 (-)NCBI
Rnor_6.0688,442,620 - 89,292,453 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_954890 (Get FASTA)   NCBI Sequence Viewer  
  XP_008762910 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968176 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968177 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAQ75750 (Get FASTA)   NCBI Sequence Viewer  
  P60756 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_954890   ⟸   NM_199269
- Peptide Label: precursor
- UniProtKB: P60756 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008762910   ⟸   XM_008764688
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017449625   ⟸   XM_017594136
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000000767   ⟸   ENSRNOT00000000767
RefSeq Acc Id: XP_038968177   ⟸   XM_039112249
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038968176   ⟸   XM_039112248
- Peptide Label: isoform X2
Protein Domains
Fibronectin type-III   Ig-like   MAM

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:735131 AgrOrtholog
Ensembl Genes ENSRNOG00000000618 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000767 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000767 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ConA-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:314180 UniProtKB/Swiss-Prot
NCBI Gene 314180 ENTREZGENE
Pfam I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mdga2 PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAM_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49265 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49899 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0H2UH93_RAT UniProtKB/TrEMBL
  MDGA2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Mdga2  MAM domain containing glycosylphosphatidylinositol anchor 2  Mamdc1  MAM domain containing glycosylphosphatidylinositol anchor 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Mamdc1  MAM domain containing glycosylphosphatidylinositol anchor 2  Mdga2    Symbol and Name updated 1299863 APPROVED