Ndn (necdin, MAGE family member) - Rat Genome Database

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Gene: Ndn (necdin, MAGE family member) Rattus norvegicus
Analyze
Symbol: Ndn
Name: necdin, MAGE family member
RGD ID: 1310526
Description: Predicted to enable gamma-tubulin binding activity and promoter-specific chromatin binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including nervous system development; neurotrophin TRK receptor signaling pathway; and positive regulation of nitrogen compound metabolic process. Predicted to be located in several cellular components, including centrosome; cytosol; and nucleoplasm. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Prader-Willi syndrome. Orthologous to human NDN (necdin, MAGE family member); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: MGC105768; necdin; necdin homolog; necdin homolog (mouse); necdin, melanoma antigen (MAGE) family member
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
GRCr81125,261,059 - 125,262,658 (+)NCBIGRCr8
mRatBN7.21115,849,168 - 115,850,767 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1115,849,105 - 115,850,767 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1123,796,017 - 123,797,616 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01130,978,517 - 130,980,116 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01123,804,265 - 123,805,864 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01122,981,755 - 122,983,354 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1122,981,755 - 122,983,351 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01124,119,141 - 124,120,740 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41116,594,603 - 116,596,202 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11116,672,945 - 116,674,545 (+)NCBI
Celera1108,120,324 - 108,121,923 (+)NCBICelera
Cytogenetic Map1q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Nogo-A inhibits necdin-accelerated neurite outgrowth by retaining necdin in the cytoplasm. Liu X, etal., Mol Cell Neurosci. 2009 May;41(1):51-61. Epub 2009 Feb 6.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. The human chromosomal gene for necdin, a neuronal growth suppressor, in the Prader-Willi syndrome deletion region. Nakada Y, etal., Gene. 1998 Jun 15;213(1-2):65-72.
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. The p75 neurotrophin receptor interacts with multiple MAGE proteins. Tcherpakov M, etal., J Biol Chem 2002 Dec 20;277(51):49101-4.
Additional References at PubMed
PMID:10508517   PMID:10965153   PMID:12477932   PMID:12629158   PMID:14593116   PMID:15649943   PMID:15972963   PMID:16049186   PMID:19818769   PMID:20220004   PMID:20663865   PMID:21150695  
PMID:22442722   PMID:24349431  


Genomics

Comparative Map Data
Ndn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81125,261,059 - 125,262,658 (+)NCBIGRCr8
mRatBN7.21115,849,168 - 115,850,767 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1115,849,105 - 115,850,767 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1123,796,017 - 123,797,616 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01130,978,517 - 130,980,116 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01123,804,265 - 123,805,864 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01122,981,755 - 122,983,354 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1122,981,755 - 122,983,351 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01124,119,141 - 124,120,740 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41116,594,603 - 116,596,202 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11116,672,945 - 116,674,545 (+)NCBI
Celera1108,120,324 - 108,121,923 (+)NCBICelera
Cytogenetic Map1q22NCBI
NDN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381523,685,400 - 23,687,305 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1523,685,400 - 23,687,305 (-)EnsemblGRCh38hg38GRCh38
GRCh371523,930,547 - 23,932,452 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361521,481,647 - 21,483,543 (-)NCBINCBI36Build 36hg18NCBI36
Build 341521,481,646 - 21,483,543NCBI
Celera152,091,460 - 2,093,348 (-)NCBICelera
Cytogenetic Map15q11.2NCBI
HuRef152,066,175 - 2,068,071 (-)NCBIHuRef
CHM1_11523,880,849 - 23,882,745 (-)NCBICHM1_1
T2T-CHM13v2.01521,419,888 - 21,421,793 (-)NCBIT2T-CHM13v2.0
Ndn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39761,998,025 - 61,999,676 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl761,996,317 - 62,000,010 (+)EnsemblGRCm39 Ensembl
GRCm38762,348,277 - 62,349,928 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl762,346,569 - 62,350,262 (+)EnsemblGRCm38mm10GRCm38
MGSCv37769,493,163 - 69,494,814 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36762,227,298 - 62,228,878 (+)NCBIMGSCv36mm8
MGSCv36751,709,553 - 51,711,133 (+)NCBIMGSCv36mm8
Cytogenetic Map7CNCBI
cM Map734.36NCBI
Ndn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541631,125,924 - 31,126,889 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541631,125,354 - 31,127,010 (-)NCBIChiLan1.0ChiLan1.0
NDN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21611,419,144 - 11,420,810 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11514,994,194 - 14,995,858 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0155,977,519 - 5,979,185 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11521,176,270 - 21,177,467 (-)NCBIpanpan1.1PanPan1.1panPan2
NDN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1336,313,977 - 36,315,661 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl336,314,104 - 36,315,081 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha338,977,703 - 38,979,382 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0336,703,979 - 36,705,659 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl336,703,985 - 36,705,961 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1336,210,187 - 36,211,865 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0336,473,293 - 36,474,972 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0336,617,808 - 36,619,491 (+)NCBIUU_Cfam_GSD_1.0
Ndn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640124,509,175 - 124,510,858 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936805849,345 - 850,322 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936805849,218 - 850,894 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NDN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1142,412,565 - 142,414,240 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11142,412,688 - 142,413,665 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21158,275,444 - 158,276,423 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NDN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12657,939,212 - 57,940,868 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2657,939,330 - 57,940,295 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605440,938,673 - 40,940,350 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ndn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624768579,607 - 581,302 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ndn
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:90
Count of miRNA genes:70
Interacting mature miRNAs:86
Transcripts:ENSRNOT00000013468
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
61346Rf2Renal disease susceptibility QTL 23.7urine protein amount (VT:0005160)urine protein level (CMO:0000591)199267916144267916Rat
61370Mcs3Mammary carcinoma susceptibility QTL 32.15mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1102268556147268556Rat
61399Tcat1Tongue tumor resistance QTL 13.3tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 5 mm (CMO:0001879)199267916144267916Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)187580395150700247Rat
724567Tcas6Tongue tumor susceptibility QTL 66.85tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)192948896144267916Rat
631569Bp93Blood pressure QTL 930.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847121834139Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642644214537671Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)number of 20 x 20 cm floor squares crossed into, out of or within a discrete space in an experimental apparatus (CMO:0001514)183547917128547917Rat
631496Bp97Blood pressure QTL 973.08arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847151047847Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1331800Scl25Serum cholesterol level QTL 253.013blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)194494440117601394Rat
1300153Bp171Blood pressure QTL 1713.37arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)190664883143200202Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)190532338123479925Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354623Rf46Renal function QTL 463.8blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)1102813953151162766Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
1641897Alcrsp1Alcohol response QTL 1response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2293142Bp314Blood pressure QTL 314arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192184926137184926Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)182174743118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2303591Gluco41Glucose level QTL 412blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1102168504147168504Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
2317833Alcrsp19Alcohol response QTL 1912.40.001response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)180592172125592172Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
9590300Scort16Serum corticosterone level QTL 164.390.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1103111621148111621Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
8694370Bw154Body weight QTL 1548.910.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)1103111621148111621Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat

Markers in Region
AI528698  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21115,850,559 - 115,850,651 (+)MAPPERmRatBN7.2
Rnor_6.01122,983,147 - 122,983,238NCBIRnor6.0
Rnor_5.01124,120,533 - 124,120,624UniSTSRnor5.0
RGSC_v3.41116,595,995 - 116,596,086UniSTSRGSC3.4
Celera1108,121,716 - 108,121,807UniSTS
Cytogenetic Map1q22UniSTS
Ndn  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21115,849,562 - 115,850,509 (+)MAPPERmRatBN7.2
Rnor_6.01122,982,150 - 122,983,096NCBIRnor6.0
Rnor_5.01124,119,536 - 124,120,482UniSTSRnor5.0
RGSC_v3.41116,594,998 - 116,595,944UniSTSRGSC3.4
Celera1108,120,719 - 108,121,665UniSTS
Cytogenetic Map1q22UniSTS
Ndn  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21115,849,480 - 115,849,859 (+)MAPPERmRatBN7.2
Rnor_6.01122,982,068 - 122,982,446NCBIRnor6.0
Rnor_5.01124,119,454 - 124,119,832UniSTSRnor5.0
Celera1108,120,637 - 108,121,015UniSTS
Cytogenetic Map1q22UniSTS
Ndn  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21115,849,480 - 115,850,752 (+)MAPPERmRatBN7.2
Rnor_6.01122,982,068 - 122,983,339NCBIRnor6.0
Rnor_5.01124,119,454 - 124,120,725UniSTSRnor5.0
Celera1108,120,637 - 108,121,908UniSTS
Cytogenetic Map1q22UniSTS


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 1 28 22 12 7 12 2 2 74 20 33 6 2
Low 2 15 29 23 12 23 6 9 15 8 5 6
Below cutoff 6 6 6

Sequence


RefSeq Acc Id: ENSRNOT00000013468   ⟹   ENSRNOP00000013464
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1115,849,105 - 115,850,767 (+)Ensembl
Rnor_6.0 Ensembl1122,981,755 - 122,983,351 (+)Ensembl
RefSeq Acc Id: NM_001008558   ⟹   NP_001008558
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81125,261,059 - 125,262,658 (+)NCBI
mRatBN7.21115,849,168 - 115,850,767 (+)NCBI
Rnor_6.01122,981,755 - 122,983,354 (+)NCBI
Rnor_5.01124,119,141 - 124,120,740 (+)NCBI
RGSC_v3.41116,594,603 - 116,596,202 (+)RGD
Celera1108,120,324 - 108,121,923 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001008558 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH87630 (Get FASTA)   NCBI Sequence Viewer  
  EDM08368 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013464
  ENSRNOP00000013464.3
RefSeq Acc Id: NP_001008558   ⟸   NM_001008558
- UniProtKB: G3V7A4 (UniProtKB/TrEMBL),   A6JBJ1 (UniProtKB/TrEMBL),   Q5PPL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013464   ⟸   ENSRNOT00000013468
Protein Domains
MAGE

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V7A4-F1-model_v2 AlphaFold G3V7A4 1-325 view protein structure

Transcriptome

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

Promoters
RGD ID:13690090
Promoter ID:EPDNEW_R615
Type:multiple initiation site
Name:Ndn_1
Description:necdin, MAGE family member
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_6.01122,981,735 - 122,981,795EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310526 AgrOrtholog
BioCyc Gene G2FUF-59118 BioCyc
Ensembl Genes ENSRNOG00000010146 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013468 ENTREZGENE
  ENSRNOT00000013468.7 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.1200 UniProtKB/TrEMBL
  1.10.10.1210 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7319134 IMAGE-MGC_LOAD
InterPro MAGE UniProtKB/TrEMBL
  MAGE UniProtKB/TrEMBL
  MAGE_WH1 UniProtKB/TrEMBL
  MAGE_WH2 UniProtKB/TrEMBL
KEGG Report rno:308690 UniProtKB/TrEMBL
MGC_CLONE MGC:105768 IMAGE-MGC_LOAD
NCBI Gene 308690 ENTREZGENE
PANTHER PTHR11736 UniProtKB/TrEMBL
  PTHR11736:SF10 UniProtKB/TrEMBL
Pfam MAGE UniProtKB/TrEMBL
PhenoGen Ndn PhenoGen
PROSITE MAGE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010146 RatGTEx
SMART MAGE UniProtKB/TrEMBL
UniProt A6JBJ1 ENTREZGENE, UniProtKB/TrEMBL
  G3V7A4 ENTREZGENE, UniProtKB/TrEMBL
  Q5PPL0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-10 Ndn  necdin, MAGE family member  Ndn  necdin, melanoma antigen (MAGE) family member  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-12-18 Ndn  necdin, melanoma antigen (MAGE) family member  Ndn  necdin homolog (mouse)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Ndn  necdin homolog (mouse)  Ndn  necdin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Ndn  necdin  Ndn_predicted  necdin (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ndn_predicted  necdin (predicted)      Symbol and Name status set to approved 70820 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_mutations_overexpression ectopic expression of Mageh1 in PC-12 cells caused an acceleration of NGF-induced neuronal differentiation, possibly through synergy between Nectin-Ngfr signaling and a TrkA signaling pathway 729117