Macroh2a2 (macroH2A.2 histone) - Rat Genome Database

Name: Macroh2a2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Macroh2a2 (macroH2A.2 histone) Rattus norvegicus

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Symbol:

Macroh2a2

Name:

macroH2A.2 histone

RGD ID:

1561371

Description:

Predicted to enable RNA polymerase II transcription regulatory region sequence-specific DNA binding activity and chromatin DNA binding activity. Predicted to be a structural constituent of chromatin. Predicted to be involved in several processes, including establishment of protein localization to chromatin; negative regulation of macromolecule biosynthetic process; and positive regulation of keratinocyte differentiation. Predicted to act upstream of or within sex-chromosome dosage compensation. Located in chromatin. Orthologous to human MACROH2A2 (macroH2A.2 histone); PARTICIPATES IN histone modification pathway; systemic lupus erythematosus pathway; INTERACTS WITH 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

core histone macro-H2A.2; H2A histone family, member Y2; H2afy2; LOC361844; RGD1561371; similar to macroH2A2

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):	MACROH2A2 (macroH2A.2 histone)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Macroh2a2 (macroH2A.2 histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	LOC102017503 (core histone macro-H2A.2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LOC100974647 (core histone macro-H2A.2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	MACROH2A2 (macroH2A.2 histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101956559 (core histone macro-H2A.2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	MACROH2A2 (macroH2A.2 histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	H2AFY2 (H2A histone family member Y2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	LOC101712013 (core histone macro-H2A.2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	MACROH2A1 (macroH2A.1 histone)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	MACROH2A2 (macroH2A.2 histone)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Macroh2a2 (macroH2A.2 histone)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	h2afy2 (H2A histone family, member Y2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	macroh2a2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	30,220,975 - 30,270,652 (-)	NCBI		GRCr8
mRatBN7.2	20	29,678,194 - 29,727,867 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	29,678,222 - 29,727,891 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	30,689,165 - 30,738,841 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	30,080,380 - 30,129,756 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	30,822,865 - 30,872,538 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	31,352,924 - 31,402,483 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	31,352,960 - 31,402,483 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	33,152,549 - 33,200,486 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	29,104,096 - 29,154,482 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	20	31,104,770 - 31,153,499 (-)	NCBI		Celera
Cytogenetic Map	20	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,3-dinitrobenzene (EXP)

2,3,7,8-tetrachlorodibenzodioxine (EXP)

3,3',5,5'-tetrabromobisphenol A (ISO)

6-propyl-2-thiouracil (EXP)

all-trans-retinoic acid (ISO)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

chlormequat chloride (EXP)

chromium(6+) (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

DDE (ISO)

decabromodiphenyl ether (EXP)

diarsenic trioxide (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

elemental selenium (ISO)

entinostat (ISO)

folic acid (ISO)

fonofos (ISO)

fulvestrant (ISO)

gentamycin (EXP)

ivermectin (ISO)

paracetamol (EXP,ISO)

parathion (ISO)

poly(I:C) (ISO)

potassium chromate (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

propionic acid (ISO)

SB 431542 (ISO)

selenium atom (ISO)

sodium arsenite (ISO)

sodium fluoride (ISO)

terbufos (ISO)

thioacetamide (EXP)

thiram (ISO)

triptonide (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

brain development (ISO)

establishment of protein localization to chromatin (ISO)

heterochromatin formation (IBA)

negative regulation of gene expression, epigenetic (ISO)

negative regulation of transcription by RNA polymerase II (IBA,ISO)

negative regulation of transcription of nucleolar large rRNA by RNA polymerase I (IBA,ISO)

nucleosome assembly (IEA)

positive regulation of keratinocyte differentiation (ISO)

sex-chromosome dosage compensation (ISO)

Cellular Component

Barr body (ISO)

chromatin (IDA,ISO)

nucleoplasm (IEA,ISO)

nucleosome (IBA)

nucleus (IBA)

Molecular Function

chromatin DNA binding (ISO)

protein binding (ISO)

protein heterodimerization activity (IEA)

RNA polymerase II transcription regulatory region sequence-specific DNA binding (ISO)

structural constituent of chromatin (IBA)

transcription cis-regulatory region binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

histone modification pathway (ISO)

systemic lupus erythematosus pathway (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	MacroH2A histone variants act as a barrier upon reprogramming towards pluripotency.	Gaspar-Maia A, etal., Nat Commun. 2013;4:1565. doi: 10.1038/ncomms2582.
2.	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.
3.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
4.	GOA pipeline	RGD automated data pipeline
5.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Comprehensive gene review and curation	RGD comprehensive gene curation
8.	Histone variants: dynamic punctuation in transcription.	Weber CM and Henikoff S, Genes Dev. 2014 Apr 1;28(7):672-82. doi: 10.1101/gad.238873.114.

Additional References at PubMed

PMID:11331621	PMID:12477932	PMID:19135898	PMID:19734898	PMID:22871113	PMID:23376485	PMID:23533145	PMID:23595991	PMID:24071584

Genomics

Comparative Map Data

Macroh2a2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	30,220,975 - 30,270,652 (-)	NCBI		GRCr8
mRatBN7.2	20	29,678,194 - 29,727,867 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	29,678,222 - 29,727,891 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	30,689,165 - 30,738,841 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	30,080,380 - 30,129,756 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	30,822,865 - 30,872,538 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	31,352,924 - 31,402,483 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	31,352,960 - 31,402,483 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	33,152,549 - 33,200,486 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	29,104,096 - 29,154,482 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	20	31,104,770 - 31,153,499 (-)	NCBI		Celera
Cytogenetic Map	20	q11	NCBI

MACROH2A2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	70,052,846 - 70,112,282 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	70,052,544 - 70,112,282 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	71,812,602 - 71,872,038 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	71,482,363 - 71,542,046 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	71,482,622 - 71,542,021	NCBI
Celera	10	65,091,467 - 65,151,152 (+)	NCBI		Celera
Cytogenetic Map	10	q22.1	NCBI
HuRef	10	65,804,968 - 65,864,674 (+)	NCBI		HuRef
CHM1_1	10	72,094,360 - 72,154,062 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	10	70,921,840 - 70,981,283 (+)	NCBI		T2T-CHM13v2.0

Macroh2a2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	61,574,419 - 61,620,383 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	10	61,574,444 - 61,619,926 (-)	Ensembl		GRCm39 Ensembl
GRCm38	10	61,738,640 - 61,784,604 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	61,738,665 - 61,784,147 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	10	61,201,395 - 61,246,612 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	10	61,134,004 - 61,179,221 (-)	NCBI		MGSCv36	mm8
Celera	10	62,840,139 - 62,885,803 (-)	NCBI		Celera
Cytogenetic Map	10	B4	NCBI
cM Map	10	32.27	NCBI

LOC102017503
(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_004955437	21,126,006 - 21,186,797 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955437	21,126,581 - 21,186,308 (-)	NCBI	ChiLan1.0	ChiLan1.0

LOC100974647
(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	8	82,205,793 - 82,265,391 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	82,211,107 - 82,270,712 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	66,526,013 - 66,585,568 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	69,077,456 - 69,114,194 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	69,077,456 - 69,114,194 (+)	Ensembl	panpan1.1		panPan2

MACROH2A2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	4	21,057,935 - 21,087,097 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	4	21,057,947 - 21,086,730 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	4	21,171,443 - 21,220,082 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	4	21,314,237 - 21,362,993 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	4	21,314,237 - 21,362,438 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	4	21,247,163 - 21,260,687 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	4	21,417,215 - 21,465,849 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	4	21,761,518 - 21,816,628 (+)	NCBI		UU_Cfam_GSD_1.0

LOC101956559
(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_024407213	59,983,038 - 60,036,383 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936521	8,473,794 - 8,509,268 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936521	8,474,408 - 8,509,269 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

MACROH2A2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	73,003,117 - 73,055,229 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	73,002,385 - 73,055,228 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

H2AFY2
(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	9	61,194,887 - 61,254,361 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	61,195,431 - 61,231,228 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	21,933,593 - 21,993,269 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

LOC101712013
(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_004624754	4,227,644 - 4,279,077 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624754	4,227,897 - 4,276,595 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Macroh2a2
287 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	49
Count of miRNA genes:	44
Interacting mature miRNAs:	46
Transcripts:	ENSRNOT00000033529
Prediction methods:	Miranda, Rnahybrid
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
4889610	Pancm3	Pancreatic morphology QTL 3	3.75	0.001	pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	20	17617832	47606836	Rat
2303587	Bw93	Body weight QTL 93	13		body mass (VT:0001259)	body weight (CMO:0000012)	20	25106722	54435887	Rat
1641915	Colcr9	Colorectal carcinoma resistance QTL 9	2.97	0.0024	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	20	1530655	46530655	Rat
7411668	Foco32	Food consumption QTL 32	8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	36600972	Rat
2305926	Iddm37	Insulin dependent diabetes mellitus QTL 37	6		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	20	1527842	46527842	Rat
2303626	Vencon10	Ventilatory control QTL 10		0.001	respiration trait (VT:0001943)	respiration rate (CMO:0000289)	20	19190721	54435887	Rat
1598869	Memor6	Memory QTL 6	3.1		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	20	29244388	54435887	Rat
7411652	Foco24	Food consumption QTL 24		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	11757515	54435887	Rat
1331747	Hrtrt16	Heart rate QTL 16	3.163		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	20	25209734	54435887	Rat
1598816	Memor12	Memory QTL 12	2.4		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	20	2606836	47606836	Rat
2303578	Gluco50	Glucose level QTL 50	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	20	25106722	54435887	Rat
2317880	Alcrsp25	Alcohol response QTL 25	2.3		response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	17697550	54435887	Rat
6893685	Bw111	Body weight QTL 111	2.7	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	20	1	32578807	Rat
9590252	Scort12	Serum corticosterone level QTL 12	20.46	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	36600972	Rat
9590092	Insglur9	Insulin/glucose ratio QTL 9	18.38	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	20	11757515	54435887	Rat
2300188	Bmd68	Bone mineral density QTL 68	6.4	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	20	25106722	54435887	Rat

Markers in Region

RH142880

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	29,729,002 - 29,729,180 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	31,403,619 - 31,403,796	NCBI	Rnor6.0
Rnor_5.0	20	33,201,622 - 33,201,799	UniSTS	Rnor5.0
RGSC_v3.4	20	29,155,618 - 29,155,795	UniSTS	RGSC3.4
Celera	20	31,154,635 - 31,154,812	UniSTS
Cytogenetic Map	20	q11	UniSTS

AU048438

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	29,725,311 - 29,725,444 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	31,399,928 - 31,400,060	NCBI	Rnor6.0
Rnor_5.0	20	33,197,581 - 33,198,063	UniSTS	Rnor5.0
Rnor_5.0	20	33,197,581 - 33,197,713	UniSTS	Rnor5.0
RGSC_v3.4	20	29,151,927 - 29,152,059	UniSTS	RGSC3.4
Celera	20	31,150,709 - 31,150,841	UniSTS
Cytogenetic Map	20	q11	UniSTS

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.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	11	49	113	91	90	59	25	59	6	218	97	93	45	60	31

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001135807	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC139981	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC161981	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000020	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000033529 ⟹ ENSRNOP00000031717

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	29,678,222 - 29,727,891 (-)	Ensembl
Rnor_6.0 Ensembl	20	31,352,960 - 31,402,483 (-)	Ensembl

RefSeq Acc Id:

NM_001135807 ⟹ NP_001129279

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	30,220,975 - 30,270,652 (-)	NCBI
mRatBN7.2	20	29,678,194 - 29,727,867 (-)	NCBI
Rnor_6.0	20	31,352,924 - 31,402,483 (-)	NCBI
Rnor_5.0	20	33,152,549 - 33,200,486 (-)	NCBI
RGSC_v3.4	20	29,104,096 - 29,154,482 (-)	RGD
Celera	20	31,104,770 - 31,153,499 (-)	RGD

Sequence:

show sequence

GACACGCACAGATACAACCCCAAGAAAGGCAGGGTCCTGCCCGGCACCGGCGGCACGCGGGCCG
AACCTGCGGCCGGGATTGGCGCGCACTAGGCCACCGGGCGCCCGGAGCCCGCGGTGCAGCACCA
GTATTGTTTAGTGCCAAGAGACCACTCTGTCAGCAAGCTGAGAGGAAAACTGCGGCAAGATGTC
AGGCCGGAGCGGGAAGAAGAAAATGTCTAAGCTGTCTCGGTCAGCCAGGGCCGGGGTCATCTTT
CCAGTAGGGCGGTTGATGCGCTACCTGAAGAAAGGAACTTTCAAGTACCGGATCAGCGTGGGTG
CTCCAGTCTACATGGCTGCAGTCATTGAGTACCTGGCAGCGGAAATCCTAGAGTTGGCTGGGAA
CGCTGCGAGGGACAACAAGAAGGCCCGGATAGCCCCCAGACACATCCTGCTGGCCGTTGCCAAC
GATGAGGAGCTCAACCAGTTGCTGAAAGGAGTGACCATCGCCAGTGGGGGTGTCTTGCCCAGAA
TTCACCCCGAACTGTTGGCCAAAAAGCGAGGGACCAAAGGCAAGTCAGAAACCATCCTCTCCCC
ACCCCCAGAGAAAAGAGGAAGGAAGGCCGCATCAGGCAAGAAGGGGGGTAAGAAATCCAAGGCC
ACTAAGCCGCGGACGTCCAAGAAGTCCAAAGCCAAGGACAGCGATAAAGAAGGAACATCGAATT
CCACCTCAGAAGACGGGCCGGGGGATGGCTTTACCATCCTGTCTTCGAAGAGCCTCGTTCTGGG
GCAGAAGCTGTCCCTGACCCAGAGTGACATCAGCCACATCGGCTCCATGAGGGTGGAGGGCATC
GTCCACCCAACCACAGCCGAAATCGACCTCAAGGAAGAGATAGGTAAAGCCTTGGAAAAGGCCG
GGGGTAAAGAGTTCTTGGAAACAGTAAAGGAGCTTCGCAAGTCCCAAGGCCCTTTGGAAGTTGC
CGAAGCTGCCGTCAGCCAATCCAGTGGACTCGCAGCCAAGTTTGTCATCCACTGTCACATCCCC
CAGTGGGGCTCCGACAAATGTGAAGAACAGCTGGAAGAGACCATCAAAAACTGCCTGTCCGCAG
CCGAGGACAAGAAGCTTAAATCTGTCGCCTTCCCACCGTTCCCCAGTGGCAGAAACTGCTTTCC
CAAACAGACGGCCGCCCAAGTGACCCTCAAGGCCATCTCGGCCCACTTCGACGACTCGAGCTCA
TCCTCGCTGAAGAATGTGTACTTCCTGCTCTTCGACAGCGAGAGCATTGGCATCTACGTGCAGG
AGATGGCCAAACTGGACACCAAGTAGCTCCCCAGCGGGGAAGGAGGAGGGTCAGTGTGATGTCA
CAAGAGCGGGGGTTTTATTTTTTAAAAGGATTGCAGAAGGCTGACAGGGCATGGGAGCAGAGGG
TGGCTGAGAGGGTGAGCGGAGGCAGCAGGAGCAGGTCCTGCCTGCCTGGGGAAGGGGCCCGGTG
CATTTTATACTCTTTACAAAGGGCCTCTTCCACAATTAACCAGGTCTCCACCAGAGGTTTCTTT
CCATGTGTTTTTTCTTCCTGTTGTTTTAGAACTTTTTTTAAAACAAACATAAAAATAGACTTCG
TTTAGATTTATAGCATTGACTTTTACAATCTCTCTCTCTCTCTCTCTCTTACACACACACACAC
ACACACACACACACACACACACACACACACACAGAATCTGTTCAAATTTCCTATGTCTTTGGTT
CCTCCTTTTTTCCAAGGGAAGAGGGCGTGACTGTCAAACCTAGGTATACTGGCTGTCTCCCTCA
GTGGAGAGAAGATGAGAAAAACATCTCGGGGTGCTTTTCTGTTATAGGGTCCCCCCCTGACGCC
TAAAATATTTGTAACTACACCCAAAAGGGTTTTGCTTCGGGATTTTTGTTTGTTTGTTTTTGTT
TTTTTAAAGAAAAAGAAAAAATGAGAAGAAAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001129279	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI61981	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000031717.4

RefSeq Acc Id:

NP_001129279 ⟸ NM_001135807

- UniProtKB:

B1WC28 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSGRSGKKKMSKLSRSARAGVIFPVGRLMRYLKKGTFKYRISVGAPVYMAAVIEYLAAEILELA
GNAARDNKKARIAPRHILLAVANDEELNQLLKGVTIASGGVLPRIHPELLAKKRGTKGKSETIL
SPPPEKRGRKAASGKKGGKKSKATKPRTSKKSKAKDSDKEGTSNSTSEDGPGDGFTILSSKSLV
LGQKLSLTQSDISHIGSMRVEGIVHPTTAEIDLKEEIGKALEKAGGKEFLETVKELRKSQGPLE
VAEAAVSQSSGLAAKFVIHCHIPQWGSDKCEEQLEETIKNCLSAAEDKKLKSVAFPPFPSGRNC
FPKQTAAQVTLKAISAHFDDSSSSSLKNVYFLLFDSESIGIYVQEMAKLDTK

hide sequence

Ensembl Acc Id:

ENSRNOP00000031717 ⟸ ENSRNOT00000033529

Protein Domains

Macro

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B1WC28-F1-model_v2	AlphaFold	B1WC28	1-372	view protein structure

Transcriptome

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

Promoters

RGD ID:

13701608

Promoter ID:

EPDNEW_R12132

Type:

initiation region

Name:

H2afy2_1

Description:

H2A histone family, member Y2

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	20	31,402,512 - 31,402,572	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1561371	AgrOrtholog
BioCyc Gene	G2FUF-3713	BioCyc
Ensembl Genes	ENSRNOG00000024751	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000033529.7	UniProtKB/TrEMBL
Gene3D-CATH	1.10.20.10	UniProtKB/TrEMBL
	3.40.220.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:9029999	IMAGE-MGC_LOAD
InterPro	A1pp	UniProtKB/TrEMBL
	Core_histone_macro-H2A	UniProtKB/TrEMBL
	Histone-fold	UniProtKB/TrEMBL
	Histone_core_D	UniProtKB/TrEMBL
	Histone_H2A	UniProtKB/TrEMBL
	Histone_H2A_C	UniProtKB/TrEMBL
	Macro_dom-like	UniProtKB/TrEMBL
	Macro_H2A	UniProtKB/TrEMBL
KEGG Report	rno:361844	UniProtKB/TrEMBL
MGC_CLONE	MGC:187793	IMAGE-MGC_LOAD
NCBI Gene	361844	ENTREZGENE
PANTHER	CORE HISTONE MACRO-H2A.2	UniProtKB/TrEMBL
	PTHR23430	UniProtKB/TrEMBL
Pfam	Histone	UniProtKB/TrEMBL
	Histone_H2A_C	UniProtKB/TrEMBL
	Macro	UniProtKB/TrEMBL
PhenoGen	Macroh2a2	PhenoGen
PIRSF	Core_histone_macro-H2A	UniProtKB/TrEMBL
PRINTS	HISTONEH2A	UniProtKB/TrEMBL
PROSITE	MACRO	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000024751	RatGTEx
SMART	A1pp	UniProtKB/TrEMBL
	H2A	UniProtKB/TrEMBL
Superfamily-SCOP	Histone-fold	UniProtKB/TrEMBL
	SSF52949	UniProtKB/TrEMBL
UniProt	B1WC28	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2019-08-20	Macroh2a2	macroH2A.2 histone	H2afy2	H2A histone family, member Y2	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-02-29	H2afy2	H2A histone family, member Y2	RGD1561371_predicted	similar to macroH2A2 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-07	RGD1561371_predicted	similar to macroH2A2 (predicted)	LOC361844	similar to macroH2A2	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC361844	similar to macroH2A2			Symbol and Name status set to provisional	70820	PROVISIONAL

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)

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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RGD Manual Annotations

Imported Annotations - KEGG (archival)