HMGN2 (high mobility group nucleosomal binding domain 2) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: HMGN2 (high mobility group nucleosomal binding domain 2) Canis lupus familiaris
Analyze
Symbol: HMGN2
Name: high mobility group nucleosomal binding domain 2
RGD ID: 12273605
Description: ENCODES a protein that exhibits ditrans,polycis-polyprenyl diphosphate synthase [(2E,6E)-farnesyl diphosphate specific] activity (inferred); DNA binding (inferred); nucleosomal DNA binding (inferred); INVOLVED IN antimicrobial humoral immune response mediated by antimicrobial peptide (ortholog); negative regulation of transcription by RNA polymerase II (ortholog); regulation of development, heterochronic (ortholog); ASSOCIATED WITH Axenfeld-Rieger syndrome type 1 (ortholog); retinitis pigmentosa 59 (ortholog); FOUND IN extracellular space (ortholog); female germ cell nucleus (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: high mobility group nucleosome-binding domain-containing protein 2; HMG-17; non-histone chromosomal protein HMG-17
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1273,579,042 - 73,582,786 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl273,579,042 - 73,610,696 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha270,155,762 - 70,159,506 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0274,142,182 - 74,145,929 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl274,139,249 - 74,174,423 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1270,967,003 - 70,970,745 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0271,972,747 - 71,976,493 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0272,976,197 - 72,979,941 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:10964405   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
HMGN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1273,579,042 - 73,582,786 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl273,579,042 - 73,610,696 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha270,155,762 - 70,159,506 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0274,142,182 - 74,145,929 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl274,139,249 - 74,174,423 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1270,967,003 - 70,970,745 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0271,972,747 - 71,976,493 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0272,976,197 - 72,979,941 (-)NCBIUU_Cfam_GSD_1.0
HMGN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38126,472,440 - 26,476,642 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl126,472,440 - 26,478,209 (+)EnsemblGRCh38hg38GRCh38
GRCh37126,798,931 - 26,803,133 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,671,489 - 26,675,720 (+)NCBINCBI36Build 36hg18NCBI36
Build 34126,483,055 - 26,486,603NCBI
Celera125,196,117 - 25,200,344 (+)NCBICelera
Cytogenetic Map1p36.11NCBI
HuRef125,053,209 - 25,057,410 (+)NCBIHuRef
CHM1_1126,911,906 - 26,916,138 (+)NCBICHM1_1
T2T-CHM13v2.0126,310,460 - 26,314,663 (+)NCBIT2T-CHM13v2.0
Hmgn2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394133,692,050 - 133,695,302 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4133,692,049 - 133,695,961 (-)EnsemblGRCm39 Ensembl
GRCm384133,964,739 - 133,967,991 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4133,964,738 - 133,968,650 (-)EnsemblGRCm38mm10GRCm38
MGSCv374133,520,654 - 133,523,906 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364133,236,815 - 133,240,067 (-)NCBIMGSCv36mm8
Celera4132,142,295 - 132,145,551 (-)NCBICelera
Cytogenetic Map4D2.3NCBI
cM Map466.47NCBI
Hmgn2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85151,475,907 - 151,479,361 (-)NCBIGRCr8
mRatBN7.25146,192,126 - 146,195,580 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1630,622,845 - 30,634,512 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl5146,192,126 - 146,195,521 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5148,895,254 - 148,898,709 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05150,664,873 - 150,668,328 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05150,651,441 - 150,654,896 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05152,195,359 - 152,198,813 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5152,195,361 - 152,198,813 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05155,878,876 - 155,881,362 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45152,712,158 - 152,715,493 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15152,722,662 - 152,722,956 (-)NCBI
Celera5144,612,205 - 144,615,712 (-)NCBICelera
Cytogenetic Map5q36NCBI
Hmgn2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554525,846,085 - 5,849,996 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554525,846,085 - 5,849,996 (+)NCBIChiLan1.0ChiLan1.0
HMGN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21200,392,724 - 200,396,405 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11199,493,472 - 199,497,145 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0125,736,429 - 25,739,987 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1126,801,607 - 26,804,333 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl126,801,607 - 26,804,333 (+)Ensemblpanpan1.1panPan2
HMGN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl683,858,177 - 83,861,905 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1683,857,114 - 83,861,907 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2677,401,654 - 77,406,199 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Hmgn2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476410,477,276 - 10,480,980 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in HMGN2
46 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00845021694   ⟹   ENSCAFP00845017057
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl274,139,249 - 74,174,423 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845021723   ⟹   ENSCAFP00845017082
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl274,139,249 - 74,145,745 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845021764   ⟹   ENSCAFP00845017115
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl274,147,069 - 74,174,406 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845021784   ⟹   ENSCAFP00845017134
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl274,147,069 - 74,174,406 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845021816   ⟹   ENSCAFP00845017158
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl274,147,073 - 74,174,423 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845021833   ⟹   ENSCAFP00845017173
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl274,162,990 - 74,174,423 (-)Ensembl
RefSeq Acc Id: NM_001003101   ⟹   NP_001003101
RefSeq Status: VALIDATED
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1273,579,042 - 73,582,786 (-)NCBI
Dog10K_Boxer_Tasha270,155,762 - 70,159,506 (-)NCBI
ROS_Cfam_1.0274,142,182 - 74,145,929 (-)NCBI
UMICH_Zoey_3.1270,967,003 - 70,970,745 (-)NCBI
UNSW_CanFamBas_1.0271,972,747 - 71,976,493 (-)NCBI
UU_Cfam_GSD_1.0272,976,197 - 72,979,941 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001003101   ⟸   NM_001003101
- UniProtKB: Q711A6 (UniProtKB/Swiss-Prot),   A0A8P0T3U6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCAFP00845017158   ⟸   ENSCAFT00845021816
Ensembl Acc Id: ENSCAFP00845017173   ⟸   ENSCAFT00845021833
Ensembl Acc Id: ENSCAFP00845017115   ⟸   ENSCAFT00845021764
Ensembl Acc Id: ENSCAFP00845017082   ⟸   ENSCAFT00845021723
Ensembl Acc Id: ENSCAFP00845017134   ⟸   ENSCAFT00845021784
Ensembl Acc Id: ENSCAFP00845017057   ⟸   ENSCAFT00845021694

Promoters
RGD ID:13682587
Promoter ID:EPDNEW_C656
Type:initiation region
Name:HMGN2_1
Description:Non-histone chromosomal protein HMG-17
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1273,582,742 - 73,582,802EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000028705 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00000029502 UniProtKB/TrEMBL
  ENSCAFG00030014201 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSCAFG00040003963 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSCAFG00845012085 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000029308.4 UniProtKB/TrEMBL
  ENSCAFT00000070741.2 UniProtKB/TrEMBL
  ENSCAFT00000075603.2 UniProtKB/TrEMBL
  ENSCAFT00000082339.2 UniProtKB/TrEMBL
  ENSCAFT00000100303.1 UniProtKB/TrEMBL
  ENSCAFT00030026301.1 UniProtKB/Swiss-Prot
  ENSCAFT00030026414.1 UniProtKB/TrEMBL
  ENSCAFT00030026613.1 UniProtKB/TrEMBL
  ENSCAFT00030026648.1 UniProtKB/TrEMBL
  ENSCAFT00030026697.1 UniProtKB/TrEMBL
  ENSCAFT00040007591.1 UniProtKB/TrEMBL
  ENSCAFT00040007618.1 UniProtKB/Swiss-Prot
  ENSCAFT00040007645.1 UniProtKB/TrEMBL
  ENSCAFT00040007661.1 UniProtKB/TrEMBL
  ENSCAFT00845021694.1 UniProtKB/TrEMBL
  ENSCAFT00845021723.1 UniProtKB/TrEMBL
  ENSCAFT00845021764.1 UniProtKB/TrEMBL
  ENSCAFT00845021833.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.1180.10 UniProtKB/TrEMBL
InterPro HMGN_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UPP_synth-like UniProtKB/TrEMBL
  UPP_synth-like_CS UniProtKB/TrEMBL
  UPP_synth-like_sf UniProtKB/TrEMBL
KEGG Report cfa:403686 UniProtKB/Swiss-Prot
NCBI Gene HMGN2 ENTREZGENE
PANTHER DEHYDRODOLICHYL DIPHOSPHATE SYNTHASE COMPLEX SUBUNIT DHDDS UniProtKB/TrEMBL
  NON-HISTONE CHROMOSOMAL PROTEIN HMG-17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NONHISTONE CHROMOSOMAL PROTEIN HMG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10291 UniProtKB/TrEMBL
Pfam HMG14_17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prenyltransf UniProtKB/TrEMBL
PRINTS NONHISHMG17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE HMG14_17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UPP_SYNTHASE UniProtKB/TrEMBL
SMART HMG17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF64005 UniProtKB/TrEMBL
UniProt A0A8C0N8L9_CANLF UniProtKB/TrEMBL
  A0A8C0N959_CANLF UniProtKB/TrEMBL
  A0A8C0NDD3_CANLF UniProtKB/TrEMBL
  A0A8C0Q6X9_CANLF UniProtKB/TrEMBL
  A0A8C0RXK9_CANLF UniProtKB/TrEMBL
  A0A8I3NKG7_CANLF UniProtKB/TrEMBL
  A0A8I3NKI7_CANLF UniProtKB/TrEMBL
  A0A8I3NX41_CANLF UniProtKB/TrEMBL
  A0A8I3RZ96_CANLF UniProtKB/TrEMBL
  A0A8P0T3U6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0TQ98_CANLF UniProtKB/TrEMBL
  HMGN2_CANLF UniProtKB/Swiss-Prot, ENTREZGENE