Advanced Search (OLGA)

Gene: Hmgn1 (high mobility group nucleosome binding domain 1) Ictidomys tridecemlineatus

Analyze

Symbol:

Hmgn1

Name:

high mobility group nucleosome binding domain 1

RGD ID:

12510255

Description:

ENCODES a protein that exhibits chromatin binding (inferred); nucleosomal DNA binding (inferred); INVOLVED IN positive regulation of NAD+ ADP-ribosyltransferase activity (ortholog); PARTICIPATES IN nucleotide excision repair pathway; ASSOCIATED WITH autistic disorder (ortholog); Neoplastic Cell Transformation (ortholog); FOUND IN chromatin (inferred); female germ cell nucleus (inferred); nucleoplasm (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

non-histone chromosomal protein HMG-14

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404971	33,615,824 - 33,622,503 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936500	3,847,517 - 3,852,039 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936500	3,845,320 - 3,852,000 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

Neoplastic Cell Transformation (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chromatin organization (IEA)

positive regulation of NAD+ ADP-ribosyltransferase activity (ISO)

post-embryonic camera-type eye morphogenesis (IEA)

pyrimidine dimer repair by nucleotide-excision repair (IEA)

regulation of development, heterochronic (IEA)

regulation of epithelial cell proliferation (IEA)

regulation of transcription by RNA polymerase II (IEA)

response to UV-B (IEA)

response to UV-C (IEA)

transcription-coupled nucleotide-excision repair (IEA)

Cellular Component

chromatin (IEA)

female germ cell nucleus (IEA)

nucleoplasm (IEA)

nucleus (IEA)

Molecular Function

chromatin binding (IEA)

nucleosomal DNA binding (IEA)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

nucleotide excision repair pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Hmgn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404971	33,615,824 - 33,622,503 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936500	3,847,517 - 3,852,039 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936500	3,845,320 - 3,852,000 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

HMGN1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	21	39,342,315 - 39,349,088 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	21	39,342,315 - 39,349,647 (-)	Ensembl			hg38	GRCh38
GRCh37	21	40,714,241 - 40,721,014 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	21	39,636,111 - 39,642,917 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	21	39,636,111 - 39,642,917	NCBI
Celera	21	25,911,870 - 25,918,680 (-)	NCBI		Celera
Cytogenetic Map	21	q22.2	ENTREZGENE
HuRef	21	26,182,661 - 26,189,471 (-)	NCBI		HuRef
CHM1_1	21	40,275,470 - 40,282,285 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	21	37,726,869 - 37,733,757 (-)	NCBI		T2T-CHM13v2.0

Hmgn1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	95,922,788 - 95,928,925 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	95,921,818 - 95,928,929 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	16	96,121,588 - 96,127,725 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	96,120,618 - 96,127,729 (-)	Ensembl			mm10	GRCm38
MGSCv37	16	96,343,195 - 96,349,332 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	16	96,226,498 - 96,232,635 (-)	NCBI		MGSCv36	mm8
Celera	16	97,195,761 - 97,201,908 (-)	NCBI		Celera
Cytogenetic Map	16	C4	NCBI
cM Map	16	56.83	NCBI

Hmgn1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	11	48,891,813 - 48,897,732 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	11	48,891,814 - 48,897,771 (-)	Ensembl				GRCr8
mRatBN7.2	11	35,422,328 - 35,428,247 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	35,422,328 - 35,428,254 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	11	44,079,503 - 44,085,432 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	36,750,883 - 36,756,812 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	35,896,729 - 35,902,648 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	36,474,028 - 36,479,947 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	36,474,840 - 36,479,868 (-)	Ensembl			rn6	Rnor6.0
Rnor_6.0 Ensembl	11	39,482,408 - 39,488,326 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	11	40,004,657 - 40,010,576 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	11	36,429,800 - 36,435,719 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	11	33,043,906 - 33,049,825 (+)	NCBI		Celera
RGSC_v3.1	11	36,487,388 - 36,493,308 (-)	NCBI
Cytogenetic Map	11	q11	NCBI

Hmgn1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955407	38,136,386 - 38,143,479 (-)	Ensembl
ChiLan1.0	NW_004955407	38,136,386 - 38,142,587 (-)	NCBI	ChiLan1.0	ChiLan1.0

HMGN1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	22	35,440,108 - 35,446,982 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	21	30,295,901 - 30,302,764 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	21	25,695,582 - 25,702,689 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	21	39,034,042 - 39,040,978 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2

HMGN1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	31	34,275,400 - 34,283,373 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	31	34,275,839 - 34,282,340 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	31	33,387,631 - 33,395,816 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	31	33,621,627 - 33,629,793 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	31	33,621,627 - 33,629,802 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	31	33,494,281 - 33,502,445 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	31	33,498,856 - 33,507,137 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	31	33,989,864 - 33,998,049 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

HMGN1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	202,905,233 - 202,943,575 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	13	202,936,313 - 202,943,496 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	213,102,765 - 213,109,753 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

HMGN1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	2	83,296,811 - 83,303,581 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666054	11,156,978 - 11,163,836 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Hmgn1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624745	24,659,334 - 24,665,221 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624745	24,659,391 - 24,665,874 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005323589	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000030	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000039505 ⟹ ENSSTOP00000028108

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936500	3,847,517 - 3,852,039 (+)	Ensembl

RefSeq Acc Id:

XM_005323589 ⟹ XP_005323646

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404971	33,615,824 - 33,622,503 (-)	NCBI
SpeTri2.0	NW_004936500	3,845,320 - 3,852,000 (+)	NCBI

Sequence:

show sequence

ATGCAGGGAGTGCCTGGCCTGTTGGAGGGGCAGAAGGTGAAAGAGAAGCCTGCTCCTGCCAAGG
CGGACGCCAAGCCCCGGAAGGCGGCGGGCAAGGATAAATCATCAGACAAAAAAGTTCAAAAAGG
GAAAAGGGGAGCAAAGGGAAAACAGGCTGAAGTGGCTAACCAAGAAACTAAAGAAGATTTACCT
GCAGAAAATGGAGAAACAAAAAACGAGGAGAGTCCAGCCTCTGATGAAGCAGAAGAGAAAGAAG
CCAAGTCTGATTAATCATACACCATGTCTTTTCAGTGGTCCCGTCTCCCTTCTTGTACAATCCA
GAGGAATATTTTTATCAACTATTTTGTAAATGCAAGTTTTTTAGTAGCTCTAGAAACATTTTTA
AAAAGGAGGGAATCCCACCTCATCCCATTTTTTAAGTGTAAATGATTTTTTTTTAGAAGTGAAA
TCATTTGCTGGTTGTTTATTTTTGGGTACAACCAGAAAATAGTGGGATATTGAATTATGGGAGG
CTTGGACTGTCTTTCGTGTCAGCTTAACATTCCATAGGTGGGGGGTTTAGTTTTATATCCTACA
ATACAAAGCATATTAAATGGCAGTTTGGAGTCACAGTATTGCATTTAATGTCTTGAATATTTTA
AATTACTTCTATTCCTGTGTTTTTTAGTAGAATTGTTTCCTAAAGAAGACCACTACTGGATCAT
TGCTGTCAGAATCGTATGTACTCTGTAACATCTTTGGTTGTGGAAGTCTAGTTTTCCTAATATT
TTTAATGTGCTGTGAAAGATGAAAAATTTGAGTATGTTGTGTGTGACAAAGTTTTGAATTAGAG
GGACCTAAGTAATAACATTCAAAGATACTGGTACTTGATATTCTATTAAGAAAAAATTGCCTCC
AAATTAAAAGCTGGAAAGTCACTGGAATAACTGAAAAAGAATCACAGTATAAAGCTTTTTAGAT
TTCCGGTACGTGTGTTAAGAATTGTGTACAAAGTGAAATGTCTGTGTACTGATTCTCAATACAG
CCAATAAAATCTCAAACACGAAAAT

hide sequence

Protein Sequences


Protein RefSeqs	XP_005323646	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000028108.1

RefSeq Acc Id:	XP_005323646 ⟸ XM_005323589
- UniProtKB:	A0A287D3H6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQGVPGLLEGQKVKEKPAPAKADAKPRKAAGKDKSSDKKVQKGKRGAKGKQAEVANQETKEDLP AENGETKNEESPASDEAEEKEAKSD hide sequence

Ensembl Acc Id:

ENSSTOP00000028108 ⟸ ENSSTOT00000039505

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000030815	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000039505.1	UniProtKB/TrEMBL
InterPro	HMGN_fam	UniProtKB/TrEMBL
NCBI Gene	Hmgn1	ENTREZGENE
PANTHER	NON-HISTONE CHROMOSOMAL PROTEIN HMG-14	UniProtKB/TrEMBL
	NONHISTONE CHROMOSOMAL PROTEIN HMG	UniProtKB/TrEMBL
Pfam	HMG14_17	UniProtKB/TrEMBL
PRINTS	NONHISHMG17	UniProtKB/TrEMBL
SMART	HMG17	UniProtKB/TrEMBL
UniProt	A0A287D3H6	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Send us a Message

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations