Hmgn1 (high mobility group nucleosomal binding domain 1) - Rat Genome Database

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Gene: Hmgn1 (high mobility group nucleosomal binding domain 1) Mus musculus
Analyze
Symbol: Hmgn1
Name: high mobility group nucleosomal binding domain 1
RGD ID: 1317139
MGI Page MGI
Description: Enables chromatin binding activity. Acts upstream of or within several processes, including nucleotide-excision repair; post-embryonic camera-type eye morphogenesis; and response to UV. Located in female germ cell nucleus. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; sensory organ; and skin. Orthologous to human HMGN1 (high mobility group nucleosome binding domain 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: high mobility group nucleosome-binding domain-containing protein 1; high mobility group protein 14; high-mobility group nucleosome-binding domain-containing protein 1; HMG-14; Hmg14; MGC103397; non-histone chromosomal protein HMG-14
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Gm33329   Hmgn1-rs1   Hmgn1-rs10   Hmgn1-rs11   Hmgn1-rs12   Hmgn1-rs13   Hmgn1-rs14   Hmgn1-rs15   Hmgn1-rs17   Hmgn1-rs2   Hmgn1-rs3   Hmgn1-rs4   Hmgn1-rs5   Hmgn1-rs6   Hmgn1-rs7   Hmgn1-rs8   Hmgn1-rs9  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391695,922,788 - 95,928,925 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1695,921,818 - 95,928,929 (-)EnsemblGRCm39 Ensembl
GRCm381696,121,588 - 96,127,725 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1696,120,618 - 96,127,729 (-)EnsemblGRCm38mm10GRCm38
MGSCv371696,343,195 - 96,349,332 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361696,226,498 - 96,232,635 (-)NCBIMGSCv36mm8
Celera1697,195,761 - 97,201,908 (-)NCBICelera
Cytogenetic Map16C4NCBI
cM Map1656.83NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (EXP)
1,2-dimethylhydrazine  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (ISO)
2,6-dinitrotoluene  (ISO)
2-hydroxypropanoic acid  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (ISO)
6-propyl-2-thiouracil  (ISO)
acrolein  (ISO)
aflatoxin B1  (EXP)
alpha-pinene  (ISO)
amiodarone  (ISO)
aristolochic acid A  (ISO)
benzbromarone  (ISO)
benzo[a]pyrene  (EXP,ISO)
bisphenol A  (ISO)
Bisphenol B  (ISO)
C60 fullerene  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (EXP)
cisplatin  (EXP)
clofibrate  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
cyproconazole  (EXP)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
doxorubicin  (ISO)
epoxiconazole  (EXP)
ethanol  (EXP)
flutamide  (ISO)
folic acid  (EXP)
fulvestrant  (ISO)
genistein  (ISO)
gentamycin  (ISO)
hydrogen peroxide  (EXP)
inulin  (EXP)
ketamine  (ISO)
L-ethionine  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (EXP)
methidathion  (EXP)
miconazole  (EXP)
N-nitrosodiethylamine  (EXP)
nefazodone  (ISO)
nimesulide  (ISO)
omeprazole  (ISO)
ozone  (ISO)
paracetamol  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
phenobarbital  (EXP)
PhIP  (ISO)
pirinixic acid  (EXP,ISO)
propiconazole  (EXP)
rac-lactic acid  (ISO)
resveratrol  (ISO)
sodium dichromate  (ISO)
sunitinib  (ISO)
tamoxifen  (EXP)
tetrachloromethane  (EXP)
thioacetamide  (ISO)
trichloroethene  (EXP)
tungsten  (EXP)
valdecoxib  (ISO)
valproic acid  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. A gene expression map of human chromosome 21 orthologues in the mouse. Gitton Y, etal., Nature 2002 Dec 5;420(6915):586-90.
2. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
3. Nucleotide excision repair: new tricks with old bricks. Kamileri I, etal., Trends Genet. 2012 Nov;28(11):566-73. doi: 10.1016/j.tig.2012.06.004. Epub 2012 Jul 22.
4. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
5. MGDs mouse GO annotations MGD data from the GO Consortium
6. MGD IEA MGD IEA
7. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
8. Human chromosome 21 gene expression atlas in the mouse. Reymond A, etal., Nature 2002 Dec 5;420(6915):582-6.
9. Mouse MP Annotation Import Pipeline RGD automated import pipeline
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. HMGN3a and HMGN3b, two protein isoforms with a tissue-specific expression pattern, expand the cellular repertoire of nucleosome-binding proteins. West KL, etal., J Biol Chem 2001 Jul 13;276(28):25959-69. Epub 2001 May 16.
Additional References at PubMed
PMID:1360278   PMID:2140193   PMID:2402471   PMID:3342876   PMID:7873877   PMID:7925294   PMID:8397832   PMID:8477752   PMID:8534374   PMID:8889548   PMID:9244437   PMID:9750193  
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11133167   PMID:11374901   PMID:11404013   PMID:11812828   PMID:12122015   PMID:12477932   PMID:12660172   PMID:14610273  
PMID:14681479   PMID:15327773   PMID:15489334   PMID:15782199   PMID:16061652   PMID:16096646   PMID:16141072   PMID:16141073   PMID:16279949   PMID:16382150   PMID:16451822   PMID:16466397  
PMID:17062627   PMID:17154547   PMID:17967808   PMID:18218636   PMID:18287559   PMID:18502697   PMID:19079244   PMID:19303948   PMID:19521566   PMID:20034106   PMID:21267068   PMID:21278158  
PMID:21873635   PMID:22009741   PMID:22184635   PMID:22736760   PMID:22988430   PMID:23620591   PMID:23775126   PMID:24296759   PMID:24747640   PMID:24952961   PMID:25205103   PMID:25575549  
PMID:26156321   PMID:26566865   PMID:26919559   PMID:27112571   PMID:27923998   PMID:30196744   PMID:30428356   PMID:30532006   PMID:31203283   PMID:32560809   PMID:36435799  


Genomics

Comparative Map Data
Hmgn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391695,922,788 - 95,928,925 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1695,921,818 - 95,928,929 (-)EnsemblGRCm39 Ensembl
GRCm381696,121,588 - 96,127,725 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1696,120,618 - 96,127,729 (-)EnsemblGRCm38mm10GRCm38
MGSCv371696,343,195 - 96,349,332 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361696,226,498 - 96,232,635 (-)NCBIMGSCv36mm8
Celera1697,195,761 - 97,201,908 (-)NCBICelera
Cytogenetic Map16C4NCBI
cM Map1656.83NCBI
HMGN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382139,342,315 - 39,349,088 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2139,342,315 - 39,349,647 (-)EnsemblGRCh38hg38GRCh38
GRCh372140,714,241 - 40,721,014 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362139,636,111 - 39,642,917 (-)NCBINCBI36Build 36hg18NCBI36
Build 342139,636,111 - 39,642,917NCBI
Celera2125,911,870 - 25,918,680 (-)NCBICelera
Cytogenetic Map21q22.2ENTREZGENE
HuRef2126,182,661 - 26,189,471 (-)NCBIHuRef
CHM1_12140,275,470 - 40,282,285 (-)NCBICHM1_1
T2T-CHM13v2.02137,726,869 - 37,733,757 (-)NCBIT2T-CHM13v2.0
Hmgn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21135,422,328 - 35,428,247 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1135,422,328 - 35,428,254 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1144,079,503 - 44,085,432 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01136,750,883 - 36,756,812 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01135,896,729 - 35,902,648 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01136,474,028 - 36,479,947 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1139,482,408 - 39,488,326 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1136,474,840 - 36,479,868 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01140,004,657 - 40,010,576 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41136,429,800 - 36,435,719 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11136,487,388 - 36,493,308 (-)NCBI
Celera1133,043,906 - 33,049,825 (+)NCBICelera
Cytogenetic Map11q11NCBI
Hmgn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540738,136,386 - 38,143,479 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540738,136,386 - 38,142,587 (-)NCBIChiLan1.0ChiLan1.0
HMGN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan12130,295,901 - 30,302,764 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02125,695,582 - 25,702,689 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12139,034,042 - 39,040,978 (-)NCBIpanpan1.1PanPan1.1panPan2
HMGN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13134,275,400 - 34,283,373 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3134,275,839 - 34,282,340 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3133,387,631 - 33,395,816 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03133,621,627 - 33,629,793 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3133,621,627 - 33,629,802 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13133,494,281 - 33,502,445 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03133,498,856 - 33,507,137 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03133,989,864 - 33,998,049 (-)NCBIUU_Cfam_GSD_1.0
Hmgn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497133,615,824 - 33,622,503 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365003,847,517 - 3,852,039 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365003,845,320 - 3,852,000 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HMGN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13202,905,233 - 202,943,575 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113202,936,313 - 202,943,496 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213213,102,765 - 213,109,753 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HMGN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1283,296,811 - 83,303,581 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605411,156,978 - 11,163,836 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hmgn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474524,659,334 - 24,665,221 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474524,659,391 - 24,665,874 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hmgn1
232 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:926
Count of miRNA genes:545
Interacting mature miRNAs:652
Transcripts:ENSMUST00000050884, ENSMUST00000133885, ENSMUST00000142179, ENSMUST00000145713
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141113Tgq28_mtriglyceride QTL 28 (mouse)Not determined6298664696986646Mouse
1300928Etia_methanol induced activation (mouse)Not determined166331390797314016Mouse
1558740Bpq9_mblood pressure QTL 9 (mouse)Not determined166332733697327472Mouse
1302194Pgia10_mproteoglycan induced arthritis 10 (mouse)Not determined166860072298008968Mouse
1301032Tauph_mtau phosphorylation (mouse)Not determined166907613298008968Mouse
11049573Lmr18b_mleishmaniasis resistance 18b (mouse)166912761198008968Mouse
11049574Lmr18a_mleishmaniasis resistance 18a (mouse)166912761198008968Mouse
4142262Lmr18_mleishmaniasis resistance 18 (mouse)Not determined166912761198008968Mouse
11522753Cocia19_mcocaine-induced activity, QTL 19 (mouse)166925448298008968Mouse
1301598Renf2_mrenal failure 2 (mouse)Not determined167038025298008968Mouse

Markers in Region
Hmgn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map16C4UniSTS
cM Map1669.8UniSTS
Hmgn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map16C4UniSTS
Hmgn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map16C4UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000050884   ⟹   ENSMUSP00000061012
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1695,921,818 - 95,928,929 (-)Ensembl
GRCm38.p6 Ensembl1696,120,618 - 96,127,729 (-)Ensembl
RefSeq Acc Id: ENSMUST00000233292   ⟹   ENSMUSP00000156496
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1695,923,576 - 95,928,804 (-)Ensembl
GRCm38.p6 Ensembl1696,122,376 - 96,127,604 (-)Ensembl
RefSeq Acc Id: ENSMUST00000233297
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1695,927,805 - 95,928,666 (-)Ensembl
GRCm38.p6 Ensembl1696,126,605 - 96,127,466 (-)Ensembl
RefSeq Acc Id: ENSMUST00000233638
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1695,923,434 - 95,926,539 (-)Ensembl
GRCm38.p6 Ensembl1696,122,234 - 96,125,339 (-)Ensembl
RefSeq Acc Id: NM_008251   ⟹   NP_032277
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391695,922,788 - 95,928,925 (-)NCBI
GRCm381696,121,588 - 96,127,725 (-)NCBI
MGSCv371696,343,195 - 96,349,332 (-)RGD
Celera1697,195,761 - 97,201,908 (-)RGD
cM Map16 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_032277   ⟸   NM_008251
- UniProtKB: Q5HZY9 (UniProtKB/Swiss-Prot),   P18608 (UniProtKB/Swiss-Prot),   Q8CEW1 (UniProtKB/TrEMBL),   A0A3B2W3M7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000061012   ⟸   ENSMUST00000050884
RefSeq Acc Id: ENSMUSP00000156496   ⟸   ENSMUST00000233292

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P18608-F1-model_v2 AlphaFold P18608 1-96 view protein structure

Promoters
RGD ID:6827127
Promoter ID:MM_KWN:21855
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   MEF_B6
Transcripts:OTTMUST00000047612
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361696,346,746 - 96,347,942 (-)MPROMDB
RGD ID:6827128
Promoter ID:MM_KWN:21856
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:OTTMUST00000047610,   OTTMUST00000047611,   OTTMUST00000081414
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361696,349,156 - 96,350,157 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:96120 AgrOrtholog
Ensembl Genes ENSMUSG00000040681 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000061012 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000156496.2 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000050884 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000233292.2 UniProtKB/TrEMBL
InterPro HMGN_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:15312 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:96120 ENTREZGENE
NCBI Gene 15312 ENTREZGENE
PANTHER NON-HISTONE CHROMOSOMAL PROTEIN HMG-14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NONHISTONE CHROMOSOMAL PROTEIN HMG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam HMG14_17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hmgn1 PhenoGen
PRINTS NONHISHMG17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE HMG14_17 UniProtKB/Swiss-Prot
SMART HMG17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A3B2W3M7 ENTREZGENE, UniProtKB/TrEMBL
  HMGN1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q5HZY9 ENTREZGENE
  Q8CEW1 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q5HZY9 UniProtKB/Swiss-Prot