LOC100994157 (histone H2AX) - Rat Genome Database

Name: LOC100994157
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: LOC100994157 (histone H2AX) Pan paniscus

Analyze

Symbol:

LOC100994157

Name:

histone H2AX

RGD ID:

11935692

Description:

ENCODES a protein that exhibits chromatin-protein adaptor activity (ortholog); damaged DNA binding (ortholog); enzyme binding (ortholog); INVOLVED IN cellular response to gamma radiation (ortholog); cellular senescence (ortholog); cerebral cortex development (ortholog); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; histone modification pathway; ASSOCIATED WITH Breast Neoplasms (ortholog); CD3epsilon deficiency (ortholog); Chemical and Drug Induced Liver Injury (ortholog); FOUND IN centrosome (ortholog); chromatin (ortholog); chromosome (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

uncharacterized protein LOC100994157

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	H2AX (H2A.X variant histone)	NCBI	Ortholog
Mus musculus (house mouse):	H2ax (H2A.X variant histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	H2ax (H2A.X variant histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	LOC102025775 (histone H2AX)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	H2AX (H2A.X variant histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101966907 (histone H2AX)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	H2AX (H2A.X variant histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	H2AFX (histone H2AX)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	LOC101701891 (histone H2AX)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly

Position:

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	9	119,798,667 - 119,800,274 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	11	120,902,366 - 120,903,972 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	11	113,932,078 - 113,933,679 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	11	117,862,383 - 117,862,841 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Breast Neoplasms (ISO)

CD3epsilon deficiency (ISO)

Chemical and Drug Induced Liver Injury (ISO)

chromosome 11 partial duplication syndrome (ISO)

Chromosome Breakage (ISO)

Dwarfism (ISO)

Experimental Mammary Neoplasms (ISO)

Familial Atrial Fibrillation 14 (ISO)

glioblastoma (ISO)

glycogen storage disease Ib (ISO)

hypertension (ISO)

immunodeficiency 17 (ISO)

immunodeficiency 18 (ISO)

immunodeficiency 19 (ISO)

inflammatory bowel disease 28 (ISO)

isolated microphthalmia 5 (ISO)

Kidney Reperfusion Injury (ISO)

liver benign neoplasm (ISO)

Liver Reperfusion Injury (ISO)

long QT syndrome 10 (ISO)

Micronuclei, Chromosome-Defective (ISO)

Myocardial Reperfusion Injury (ISO)

Neoplasm Recurrence, Local (ISO)

oral mucosa leukoplakia (ISO)

oral squamous cell carcinoma (ISO)

Polyploidy (ISO)

RASopathy (ISO)

schizophrenia (ISO)

status epilepticus (ISO)

transient cerebral ischemia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to gamma radiation (ISO)

cellular senescence (ISO)

cerebral cortex development (ISO)

DNA damage checkpoint signaling (ISO)

DNA damage response (ISO)

DNA repair (ISO)

double-strand break repair via homologous recombination (ISO)

protein localization to site of double-strand break (ISO)

spermatogenesis (ISO)

Cellular Component

centrosome (ISO)

chromatin (ISO)

chromosome (ISO)

chromosome, telomeric region (ISO)

condensed nuclear chromosome (ISO)

male germ cell nucleus (ISO)

nuclear speck (ISO)

nucleoplasm (ISO)

nucleus (ISO)

replication fork (ISO)

site of DNA damage (ISO)

site of double-strand break (ISO)

XY body (ISO)

Molecular Function

chromatin-protein adaptor activity (ISO)

damaged DNA binding (ISO)

enzyme binding (ISO)

histone binding (ISO)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

ataxia telangiectasia-mutated (ATM) signaling pathway (ISO)

histone modification pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

LOC100994157
(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	9	119,798,667 - 119,800,274 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	11	120,902,366 - 120,903,972 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	11	113,932,078 - 113,933,679 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	11	117,862,383 - 117,862,841 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

H2AX
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	11	119,093,874 - 119,095,465 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	11	119,093,874 - 119,095,465 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	11	118,964,584 - 118,966,175 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	11	118,469,794 - 118,471,387 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	11	118,469,796 - 118,471,387	NCBI
Celera	11	116,121,998 - 116,123,592 (-)	NCBI		Celera
Cytogenetic Map	11	q23.3	NCBI
HuRef	11	114,904,032 - 114,905,625 (-)	NCBI		HuRef
CHM1_1	11	118,850,886 - 118,852,479 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	11	119,114,257 - 119,115,848 (-)	NCBI		T2T-CHM13v2.0

H2ax
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	44,246,012 - 44,247,374 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	9	44,245,991 - 44,247,374 (+)	Ensembl		GRCm39 Ensembl
GRCm38	9	44,334,715 - 44,336,077 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	44,334,694 - 44,336,077 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	44,142,798 - 44,144,160 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	9	44,085,710 - 44,087,072 (+)	NCBI		MGSCv36	mm8
Celera	9	41,589,440 - 41,590,802 (+)	NCBI		Celera
Cytogenetic Map	9	A5.2	NCBI
cM Map	9	24.84	NCBI

H2ax
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	53,568,718 - 53,570,072 (+)	NCBI		GRCr8
mRatBN7.2	8	44,671,907 - 44,673,262 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	44,671,786 - 44,673,239 (+)	Ensembl		mRatBN7.2 Ensembl
mRatBN7.2 Ensembl	4	169,675,752 - 169,677,006 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	8	50,167,819 - 50,169,136 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	8	48,446,535 - 48,447,852 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	8	46,316,913 - 46,318,230 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	8	48,665,652 - 48,666,981 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	48,665,652 - 48,666,981 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	8	47,284,623 - 47,285,952 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	47,312,609 - 47,313,938 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	8	44,258,161 - 44,259,490 (+)	NCBI		Celera
Cytogenetic Map	8	q22	NCBI

LOC102025775
(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_004955412	20,203,772 - 20,204,203 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955412	20,203,173 - 20,204,714 (-)	NCBI	ChiLan1.0	ChiLan1.0

H2AX
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	14,765,625 - 14,766,590 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	14,766,126 - 14,766,557 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	14,819,023 - 14,819,714 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	14,709,362 - 14,710,053 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	14,709,465 - 14,709,896 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	14,847,404 - 14,848,095 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	14,751,426 - 14,752,116 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	14,791,799 - 14,792,490 (+)	NCBI		UU_Cfam_GSD_1.0

LOC101966907
(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_024404947	101,125,524 - 101,127,552 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936542	4,047,915 - 4,048,346 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936542	4,046,930 - 4,049,017 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

H2AX
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	9	46,309,653 - 46,310,084 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	46,308,824 - 46,310,494 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	51,343,962 - 51,345,644 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

H2AFX
(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	1	110,466,692 - 110,468,776 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	1	110,467,775 - 110,468,206 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666043	15,565,922 - 15,567,520 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

LOC101701891
(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_004624784	14,476,730 - 14,477,161 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624784	14,475,813 - 14,477,269 (-)	NCBI	HetGla_female_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_003820012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055094976	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055094977	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JARIFH020000009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_055094976 ⟹ XP_054950951

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	9	119,798,667 - 119,799,749 (-)	NCBI
NHGRI_mPanPan1	11	120,902,366 - 120,903,450 (-)	NCBI

RefSeq Acc Id:

XM_055094977 ⟹ XP_054950952

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	9	119,798,667 - 119,800,274 (-)	NCBI
NHGRI_mPanPan1	11	120,902,366 - 120,903,972 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_054950951	(Get FASTA)	NCBI Sequence Viewer
	XP_054950952	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_054950952 ⟸ XM_055094977
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_054950951 ⟸ XM_055094976
- Peptide Label:	isoform X1

Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	LOC100994157	ENTREZGENE

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

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations