Mageb16 (MAGE family member B16) - Rat Genome Database

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Gene: Mageb16 (MAGE family member B16) Rattus norvegicus
Analyze
Symbol: Mageb16
Name: MAGE family member B16
RGD ID: 1562365
Description: Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human MAGEB16 (MAGE family member B16); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; decabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC317274; LOC317274; MAGE-B16 antigen; melanoma antigen family B, 16; melanoma-associated antigen B16; Snca
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X47,580,752 - 47,665,173 (-)NCBIGRCr8
mRatBN7.2X43,693,205 - 43,725,664 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX43,693,211 - 43,725,657 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX45,025,398 - 45,055,594 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X48,492,757 - 48,522,955 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X46,157,450 - 46,187,648 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X46,977,655 - 47,026,377 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX46,977,655 - 47,078,128 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X47,191,588 - 47,237,657 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X65,483,955 - 65,512,589 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX44,336,416 - 44,366,444 (-)NCBICelera
Cytogenetic MapXq21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IBA,IEA)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data
Mageb16
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X47,580,752 - 47,665,173 (-)NCBIGRCr8
mRatBN7.2X43,693,205 - 43,725,664 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX43,693,211 - 43,725,657 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX45,025,398 - 45,055,594 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X48,492,757 - 48,522,955 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X46,157,450 - 46,187,648 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X46,977,655 - 47,026,377 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX46,977,655 - 47,078,128 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X47,191,588 - 47,237,657 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X65,483,955 - 65,512,589 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX44,336,416 - 44,366,444 (-)NCBICelera
Cytogenetic MapXq21NCBI
MAGEB16
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X35,798,342 - 35,803,772 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX35,798,342 - 35,803,772 (+)EnsemblGRCh38hg38GRCh38
GRCh37X35,816,459 - 35,821,889 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X35,726,380 - 35,731,773 (+)NCBINCBI36Build 36hg18NCBI36
CeleraX39,944,075 - 39,949,468 (+)NCBICelera
Cytogenetic MapXp21.1NCBI
HuRefX33,557,536 - 33,562,929 (+)NCBIHuRef
CHM1_1X35,847,558 - 35,852,951 (+)NCBICHM1_1
T2T-CHM13v2.0X35,393,886 - 35,399,316 (+)NCBIT2T-CHM13v2.0
Mageb16-ps1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X143,335,754 - 143,339,235 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX143,338,207 - 143,339,333 (-)EnsemblGRCm39 Ensembl
GRCm38X144,552,758 - 144,556,239 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX144,555,211 - 144,556,337 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X140,987,301 - 140,990,782 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X140,989,299 - 140,991,135 (-)NCBIMGSCv36mm8
CeleraX128,507,754 - 128,511,235 (-)NCBICelera
Cytogenetic MapXF2NCBI
cM MapX65.69NCBI
Mageb16
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554998,159,691 - 8,173,930 (+)NCBIChiLan1.0ChiLan1.0
MAGEB16
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X37,643,015 - 37,650,720 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X37,646,531 - 37,654,095 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X28,444,872 - 28,450,693 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X36,078,785 - 36,084,368 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX36,081,171 - 36,083,807 (+)Ensemblpanpan1.1panPan2
LOC100856762
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X30,061,692 - 30,064,909 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX35,054,771 - 35,057,992 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X30,105,002 - 30,108,222 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X30,161,233 - 30,164,453 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X30,150,856 - 30,154,076 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X30,261,197 - 30,264,417 (+)NCBIUU_Cfam_GSD_1.0
LOC100522230
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X31,573,305 - 31,574,593 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X34,994,834 - 34,997,801 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Mageb16
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476219,674,668 - 19,720,676 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mageb16
105 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:466
Count of miRNA genes:224
Interacting mature miRNAs:260
Transcripts:ENSRNOT00000042568
Prediction methods:Microtar, Miranda, Pita
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
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1529780260297802Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat


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

circulatory system endocrine system hemolymphoid system integumental system musculoskeletal system nervous system reproductive system respiratory system appendage
High
Medium 9
Low 11
Below cutoff 1 1 6 3 3 2 6 1 3

Sequence


RefSeq Acc Id: ENSRNOT00000042568   ⟹   ENSRNOP00000064565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX43,693,219 - 43,725,657 (-)Ensembl
Rnor_6.0 EnsemblX46,977,657 - 47,024,102 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092871   ⟹   ENSRNOP00000076053
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX43,693,219 - 43,721,333 (-)Ensembl
Rnor_6.0 EnsemblX46,977,655 - 47,078,128 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116863   ⟹   ENSRNOP00000097562
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX43,693,211 - 43,713,808 (-)Ensembl
RefSeq Acc Id: NM_001025013   ⟹   NP_001020184
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X47,580,752 - 47,610,936 (-)NCBI
mRatBN7.2X43,693,205 - 43,723,389 (-)NCBI
Rnor_6.0X46,977,655 - 47,024,102 (-)NCBI
Rnor_5.0X47,191,588 - 47,237,657 (-)NCBI
RGSC_v3.4X65,483,955 - 65,512,589 (-)RGD
CeleraX44,336,416 - 44,366,444 (-)RGD
Sequence:
RefSeq Acc Id: XM_006256977   ⟹   XP_006257039
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X47,580,758 - 47,613,183 (-)NCBI
mRatBN7.2X43,693,211 - 43,725,625 (-)NCBI
Rnor_6.0X46,977,661 - 47,026,370 (-)NCBI
Rnor_5.0X47,191,588 - 47,237,657 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063280033   ⟹   XP_063136103
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X47,580,758 - 47,665,171 (-)NCBI
RefSeq Acc Id: XM_063280034   ⟹   XP_063136104
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X47,580,758 - 47,665,173 (-)NCBI
RefSeq Acc Id: XM_063280035   ⟹   XP_063136105
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X47,580,758 - 47,665,173 (-)NCBI
RefSeq Acc Id: NP_001020184   ⟸   NM_001025013
- UniProtKB: Q6AY37 (UniProtKB/Swiss-Prot),   M0R5A2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257039   ⟸   XM_006256977
- Peptide Label: isoform X1
- UniProtKB: Q6AY37 (UniProtKB/Swiss-Prot),   M0R5A2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000076053   ⟸   ENSRNOT00000092871
RefSeq Acc Id: ENSRNOP00000064565   ⟸   ENSRNOT00000042568
RefSeq Acc Id: ENSRNOP00000097562   ⟸   ENSRNOT00000116863
RefSeq Acc Id: XP_063136104   ⟸   XM_063280034
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063136105   ⟸   XM_063280035
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063136103   ⟸   XM_063280033
- Peptide Label: isoform X1
Protein Domains
MAGE

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AY37-F1-model_v2 AlphaFold Q6AY37 1-360 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562365 AgrOrtholog
BioCyc Gene G2FUF-2382 BioCyc
Ensembl Genes ENSRNOG00000029408 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055015065 UniProtKB/Swiss-Prot
  ENSRNOG00060025068 UniProtKB/Swiss-Prot
  ENSRNOG00065016736 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000042568 UniProtKB/TrEMBL
  ENSRNOT00000042568.5 UniProtKB/Swiss-Prot
  ENSRNOT00000092871 UniProtKB/TrEMBL
  ENSRNOT00000092871.2 UniProtKB/Swiss-Prot
  ENSRNOT00000116863.1 UniProtKB/Swiss-Prot
  ENSRNOT00055025767 UniProtKB/Swiss-Prot
  ENSRNOT00060043360 UniProtKB/Swiss-Prot
  ENSRNOT00065027917 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.10.1200 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.10.10.1210 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7131795 IMAGE-MGC_LOAD
InterPro MAGE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAGE_WH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAGE_WH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MHD_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:317274 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94270 IMAGE-MGC_LOAD
NCBI Gene 317274 ENTREZGENE
PANTHER MELANOMA-ASSOCIATED ANTIGEN B16 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11736 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam MAGE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mageb16 PhenoGen
PROSITE MAGE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029408 RatGTEx
  ENSRNOG00055015065 RatGTEx
  ENSRNOG00060025068 RatGTEx
  ENSRNOG00065016736 RatGTEx
SMART MAGE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt M0R5A2 ENTREZGENE, UniProtKB/TrEMBL
  MAGBG_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-10 Mageb16  MAGE family member B16  Mageb16  melanoma antigen family B, 16  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Mageb16  melanoma antigen family B, 16  LOC317274  hypothetical protein LOC317274  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC317274  hypothetical protein LOC317274      Symbol and Name status set to provisional 70820 PROVISIONAL