Macroh2a1 (macroH2A.1 histone) - Rat Genome Database

Name: Macroh2a1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Macroh2a1 (macroH2A.1 histone) Rattus norvegicus

Analyze

Symbol:

Macroh2a1

Name:

macroH2A.1 histone

RGD ID:

621462

Description:

Predicted to enable several functions, including ADP-D-ribose binding activity; DNA binding activity; and promoter-specific chromatin binding activity. Predicted to be a structural constituent of chromatin. Predicted to be involved in several processes, including chromatin remodeling; regulation of nucleobase-containing compound metabolic process; and regulation of response to oxidative stress. Predicted to act upstream of or within regulation of lipid metabolic process and sex-chromosome dosage compensation. Part of nucleosome. Orthologous to human MACROH2A1 (macroH2A.1 histone); PARTICIPATES IN histone modification pathway; systemic lupus erythematosus pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 3H-1,2-dithiole-3-thione.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

core histone macro-H2A.1; H2A histone family, member Y; H2A.y; H2A/y; H2afy; histone macroH2A1; MGC105515; mH2A1

RGD Orthologs

Alliance Genes

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):	MACROH2A1 (macroH2A.1 histone)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Macroh2a1 (macroH2A.1 histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	LOC102008188 (core histone macro-H2A.1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LOC100974858 (core histone macro-H2A.1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	MACROH2A1 (macroH2A.1 histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101971629 (core histone macro-H2A.1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	MACROH2A1 (macroH2A.1 histone)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	H2AFY (core histone macro-H2A.1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	LOC101706296 (core histone macro-H2A.1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	MACROH2A2 (macroH2A.2 histone)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	MACROH2A1 (macroH2A.1 histone)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Macroh2a1 (macroH2A.1 histone)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	h2afy (H2A histone family, member Y)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	macroh2a1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)

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	17	8,484,340 - 8,547,268 (+)	NCBI		GRCr8
mRatBN7.2	17	8,479,331 - 8,542,071 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	8,479,372 - 8,542,072 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	8,494,921 - 8,557,042 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	10,028,056 - 10,089,627 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	8,491,302 - 8,553,426 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	9,282,109 - 9,344,698 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	9,282,675 - 9,344,678 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	11,440,567 - 11,502,758 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	14,457,307 - 14,520,963 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	14,457,306 - 14,520,963 (+)	NCBI
Celera	17	8,563,234 - 8,625,826 (+)	NCBI		Celera
Cytogenetic Map	17	p14	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

familial adenomatous polyposis 1 (ISO)

genetic disease (ISO)

Hereditary Neoplastic Syndromes (ISO)

myelodysplastic syndrome (ISS)

Neurodevelopmental Disorders (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

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

2,6-dinitrotoluene (EXP)

2-amino-14,16-dimethyloctadecan-3-ol (ISO)

2-hydroxypropanoic acid (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

3H-1,2-dithiole-3-thione (EXP)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-amino-2,6-dinitrotoluene (EXP)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

amiodarone (EXP)

amitriptyline (EXP)

amitrole (EXP)

ammonium chloride (EXP)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

atrazine (EXP)

belinostat (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

bleomycin A2 (EXP)

cadmium dichloride (EXP)

caffeine (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chlormequat chloride (EXP)

chlorpyrifos (ISO)

choline (ISO)

cisplatin (ISO)

clofibrate (ISO)

clomipramine (EXP)

dexamethasone (ISO)

disodium selenite (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

entinostat (ISO)

fenthion (ISO)

finasteride (EXP)

folic acid (ISO)

formaldehyde (ISO)

FR900359 (ISO)

gentamycin (EXP)

hydroquinone (ISO)

imipramine (EXP)

indometacin (ISO)

ivermectin (ISO)

ketoconazole (EXP)

L-methionine (ISO)

lead(0) (ISO)

mercury dibromide (ISO)

methidathion (ISO)

methimazole (EXP)

methoxychlor (EXP)

methyl methanesulfonate (ISO)

N-methyl-4-phenylpyridinium (ISO)

p-chloromercuribenzoic acid (ISO)

panobinostat (ISO)

paracetamol (ISO)

perfluorohexanesulfonic acid (ISO)

pirinixic acid (ISO)

propiconazole (EXP,ISO)

rac-lactic acid (ISO)

raloxifene (EXP)

rotenone (EXP)

SB 431542 (ISO)

sodium arsenite (ISO)

sodium fluoride (ISO)

sulfadimethoxine (EXP)

sulindac (EXP)

tamoxifen (ISO)

tert-butyl hydroperoxide (ISO)

titanium dioxide (ISO)

trichostatin A (ISO)

triptonide (ISO)

troglitazone (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

DNA repair (ISO)

epigenetic regulation of gene expression (ISO)

establishment of protein localization to chromatin (ISO)

heterochromatin formation (IBA)

heterochromatin organization (IBA)

negative regulation of cell cycle G2/M phase transition (ISO)

negative regulation of gene expression, epigenetic (IBA,ISO)

negative regulation of protein localization to chromosome, telomeric region (ISO)

negative regulation of response to oxidative stress (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 endodermal cell differentiation (ISO)

positive regulation of keratinocyte differentiation (ISO)

positive regulation of maintenance of mitotic sister chromatid cohesion (ISO)

positive regulation of response to oxidative stress (ISO)

regulation of lipid metabolic process (ISO)

regulation of NAD metabolic process (ISO,ISS)

regulation of oxidative phosphorylation (ISO)

regulation of rDNA heterochromatin formation (ISO)

regulation of response to oxidative stress (ISO)

sex-chromosome dosage compensation (ISO)

transcription initiation-coupled chromatin remodeling (ISO)

Cellular Component

Barr body (ISO)

chromatin (IDA,ISO)

condensed chromosome (ISO)

nuclear chromosome (ISO)

nucleolus (ISO)

nucleoplasm (IEA,ISO)

nucleosome (IBA,IDA,IEA)

nucleus (IBA,IEA,ISO,ISS)

pericentric heterochromatin (ISO)

site of DNA damage (ISO)

Molecular Function

ADP-D-ribose binding (ISO,ISS)

ADP-D-ribose modification-dependent protein binding (ISO,ISS)

chromatin binding (ISO)

chromatin DNA binding (IEA,ISO)

DNA binding (IEA)

double-stranded methylated DNA binding (ISO)

enzyme binding (ISO)

nucleosomal DNA binding (IBA,ISO)

promoter-specific chromatin binding (ISO)

protein binding (ISO)

protein heterodimerization activity (IEA)

protein kinase binding (ISO)

protein serine/threonine kinase inhibitor activity (ISO)

rDNA binding (ISO)

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

structural constituent of chromatin (IEA,ISO)

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.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	MacroH2A, a core histone containing a large nonhistone region.	Pehrson JR and Fried VA, Science 1992 Sep 4;257(5075):1398-400.
7.	Developmental and tissue expression patterns of histone macroH2A1 subtypes.	Pehrson JR, etal., J Cell Biochem. 1997 Apr;65(1):107-13.
8.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
9.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
10.	Comprehensive gene review and curation	RGD comprehensive gene curation
11.	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:12082075	PMID:12419249	PMID:12477932	PMID:15053874	PMID:15489334	PMID:16107708	PMID:18936163	PMID:19135898	PMID:19486527	PMID:19734898	PMID:20008927
PMID:21630459	PMID:22194607	PMID:23022728	PMID:23376485	PMID:23533145	PMID:23595991	PMID:24071584	PMID:25526730	PMID:25931508	PMID:26373281	PMID:29476059

Genomics

Comparative Map Data

Macroh2a1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	8,484,340 - 8,547,268 (+)	NCBI		GRCr8
mRatBN7.2	17	8,479,331 - 8,542,071 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	8,479,372 - 8,542,072 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	8,494,921 - 8,557,042 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	10,028,056 - 10,089,627 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	8,491,302 - 8,553,426 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	9,282,109 - 9,344,698 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	9,282,675 - 9,344,678 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	11,440,567 - 11,502,758 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	14,457,307 - 14,520,963 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	14,457,306 - 14,520,963 (+)	NCBI
Celera	17	8,563,234 - 8,625,826 (+)	NCBI		Celera
Cytogenetic Map	17	p14	NCBI

MACROH2A1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	135,334,381 - 135,399,887 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	5	135,334,381 - 135,399,914 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	5	134,670,071 - 134,735,577 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	134,697,970 - 134,763,476 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	5	134,697,969 - 134,762,802	NCBI
Celera	5	130,793,877 - 130,859,396 (-)	NCBI		Celera
Cytogenetic Map	5	q31.1	NCBI
HuRef	5	129,857,754 - 129,923,276 (-)	NCBI		HuRef
CHM1_1	5	134,102,741 - 134,168,247 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	5	135,861,569 - 135,927,059 (-)	NCBI		T2T-CHM13v2.0

Macroh2a1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	56,221,435 - 56,283,439 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	56,221,432 - 56,284,174 (-)	Ensembl		GRCm39 Ensembl
GRCm38	13	56,073,622 - 56,135,626 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	56,073,619 - 56,136,361 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	56,174,983 - 56,236,911 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	56,083,796 - 56,145,137 (-)	NCBI		MGSCv36	mm8
Celera	13	57,128,470 - 57,190,557 (-)	NCBI		Celera
Cytogenetic Map	13	B1	NCBI
cM Map	13	30.06	NCBI

LOC102008188
(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_004955408	30,497,531 - 30,550,118 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955408	30,497,531 - 30,550,095 (-)	NCBI	ChiLan1.0	ChiLan1.0

LOC100974858
(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	4	130,622,460 - 130,690,055 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	5	128,762,020 - 128,826,904 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	5	130,727,065 - 130,791,932 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	5	136,868,521 - 136,933,834 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	136,868,521 - 136,933,834 (-)	Ensembl	panpan1.1		panPan2

MACROH2A1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	23,369,957 - 23,448,235 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	11	23,370,300 - 23,438,219 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	22,118,904 - 22,197,335 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	24,196,790 - 24,265,246 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	24,205,586 - 24,264,536 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	22,875,051 - 22,953,381 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	22,740,600 - 22,819,048 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	23,384,272 - 23,469,034 (-)	NCBI		UU_Cfam_GSD_1.0

LOC101971629
(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	123,471,582 - 123,531,449 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936597	2,495,862 - 2,556,603 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936597	2,496,489 - 2,556,352 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

MACROH2A1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	137,534,138 - 137,623,886 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	137,535,128 - 137,623,886 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	143,054,432 - 143,135,657 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

H2AFY
(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	23	38,113,212 - 38,178,227 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	23	38,113,195 - 38,168,382 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666034	39,737,224 - 39,802,999 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

LOC101706296
(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_004624733	11,650,537 - 11,715,999 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624733	11,650,067 - 11,714,399 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Macroh2a1
297 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	386
Count of miRNA genes:	189
Interacting mature miRNAs:	223
Transcripts:	ENSRNOT00000015632, ENSRNOT00000051702
Prediction methods:	Microtar, 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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
9590316	Scort21	Serum corticosterone level QTL 21	4.75	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	1	22871563	Rat
10401807	Kidm52	Kidney mass QTL 52			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	17	1	31701463	Rat
70184	BpQTLcluster14	Blood pressure QTL cluster 14	3.38		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	1	31990913	Rat
631207	Niddm41	Non-insulin dependent diabetes mellitus QTL 41			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	17	1	37830672	Rat
1354658	Spl8	Serum phospholipid level QTL 8	3.8		blood VLDL phospholipid amount (VT:0010507)	blood very low density lipoprotein phospholipid level (CMO:0001571)	17	1	60781592	Rat
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	69599340	Rat
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	69599340	Rat
1641902	Colcr7	Colorectal carcinoma resistance QTL 7	3.35	0.0044	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	17	2115149	21881669	Rat
1300123	Bp194	Blood pressure QTL 194	2.82		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	2115149	34551001	Rat
631499	Stl1	Serum triglyceride level QTL 1	3.6		blood triglyceride amount (VT:0002644)	blood triglyceride level (CMO:0000118)	17	3271398	27389946	Rat
2324619	Coatc4	Coat color QTL 4		0.001	coat/hair pigmentation trait (VT:0010463)	pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)	17	4299130	21293263	Rat
2324619	Coatc4	Coat color QTL 4		0.001	coat/hair pigmentation trait (VT:0010463)	pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)	17	4299130	21293263	Rat
1354613	Kidm14	Kidney mass QTL 14	6.2		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	17	4299130	35837242	Rat
1354596	Bw32	Body weight QTL 32	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	17	4299130	60781592	Rat
1354630	Cm34	Cardiac mass QTL 34	8.7		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	4299130	69599340	Rat
1354638	Insul1	Insulin level QTL 1	4.8		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	4299130	69599340	Rat
1354651	Lmblg2	Limb length QTL 2	6		tibia length (VT:0004357)	tibia length (CMO:0000450)	17	4299130	69599340	Rat
2293648	Bmd31	Bone mineral density QTL 31	4.5	0.0001	femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	17	4354487	27028127	Rat
2293664	Bmd28	Bone mineral density QTL 28	5.1	0.0001	femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	17	4354487	27028127	Rat
2303627	Vencon8	Ventilatory control QTL 8		0.001	respiration trait (VT:0001943)	tidal volume (CMO:0000222)	17	4528038	49528038	Rat
10054088	Scort28	Serum corticosterone level QTL 28	2.04	0.0102	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	4528038	49528038	Rat
1581553	Pur14	Proteinuria QTL 14	5.3	0.0001	urine total protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	17	7979968	16317111	Rat

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	35	57	41	19	41	7	10	74	35	41	11	7
Low		8					1	1					1
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_017182	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006253573	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006253574	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006253575	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006253576	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006253577	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095579	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095580	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005495266	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005495267	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_010058850	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_010058851	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC089093	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474032	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000017	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M99065	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M99066	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U79139	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000015632 ⟹ ENSRNOP00000015632

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	8,485,886 - 8,541,561 (+)	Ensembl
Rnor_6.0 Ensembl	17	9,289,189 - 9,344,188 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000051702 ⟹ ENSRNOP00000049143

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	8,479,372 - 8,542,051 (+)	Ensembl
Rnor_6.0 Ensembl	17	9,282,675 - 9,344,678 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000099134 ⟹ ENSRNOP00000076427

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	8,479,372 - 8,542,072 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000117731 ⟹ ENSRNOP00000083083

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	8,479,372 - 8,518,785 (+)	Ensembl

RefSeq Acc Id:

NM_017182 ⟹ NP_058878

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,550 - 8,547,268 (+)	NCBI
mRatBN7.2	17	8,479,352 - 8,542,071 (+)	NCBI
Rnor_6.0	17	9,282,675 - 9,344,698 (+)	NCBI
Rnor_5.0	17	11,440,567 - 11,502,758 (+)	NCBI
RGSC_v3.4	17	14,457,307 - 14,520,963 (+)	RGD
Celera	17	8,563,234 - 8,625,826 (+)	RGD

Sequence:

show sequence

CCAGTTCACTGGTTCCAGCGGAGCCGGGCGGAGGGCGCGAGCGCGGGACGCGCGGGCGGGAAGC
GAGGAGGCGTGGGCGGGCAGGCAGGAGTGCGGAGCGGACCGGCGCAAGAGGCCGACCGGGCTCG
GGCCCCTCACCGTGCAGCCGCCCGTGAGCTTGCTGATCTGTTTCTGGGGCCGTCGCCATGTCGA
GCCGTGGTGGGAAGAAGAAATCCACCAAGACCTCCCGGTCAGCCAAGGCCGGGGTCATCTTCCC
CGTGGGACGGATGCTGCGGTACATCAAGAAAGGCCACCCTAAGTATCGGATCGGAGTGGGGGCG
CCTGTGTACATGGCTGCCGTACTGGAATACCTGACCGCTGAGATCCTGGAGCTGGCCGGCAATG
CAGCGAGAGACAACAAGAAGGGGCGGGTCACACCGCGGCACATCCTGTTAGCAGTGGCCAATGA
TGAGGAGCTAAACCAGCTGCTAAAAGGAGTCACCATAGCCAGTGGGGGCGTGTTGCCGAACATC
CATCCTGAGTTGCTAGCGAAGAAACGAGGATCCAAGGGAAAATTGGAAGCCATCATCACGCCTC
CACCAGCCAAAAAGGCCAAGTCTCCATCCCAGAAGAAGCCAGTGGCTAAGAAAACAGGAGGCAA
GAAAGGGGCCCGGAAGTCTAAGAAGCAGGGAGAAGTCAGCAAGGCAGCCAGCGCAGACAGTACA
ACGGAGGGCGCGCCTACAGACGGCTTTACTGTCCTCTCTACCAAGAGCCTCTTCCTCGGCCAGA
AGCTGAACCTTATTCACAGTGAAATCAGTAATTTAGCCGGCTTTGAGGTGGAGGCCATAATCAA
TCCTACCAATGCTGACATTGACCTTAAAGATGACCTAGGAAGCACACTGGAGAAGAAAGGTGGC
AAGGAGTTTGTAGAAGCTGTTCTGGAACTTCGGAAAAAGAATGGGCCCTTGGAAGTAGCTGGAG
CTGCTGTTAGTGCAGGCCACGGCCTGCCTGCCAAGTTTGTGATCCACTGTAACAGTCCTGTCTG
GGGCGCAGACAAATGTGAAGAACTTCTAGAAAAGACGGTGAAAAACTGCCTGGCTCTAGCTGAT
GACAGAAAGCTGAAGTCCATCGCCTTCCCGTCTATTGGCAGTGGCAGGAACGGGTTCCCGAAGC
AGACAGCCGCCCAACTCATTCTGAAGGCCATCTCCAGCTACTTTGTGTCCACTATGTCGTCCTC
CATCAAAACTGTGTACTTTGTGCTTTTTGACAGTGAGAGCATAGGCATCTACGTGCAGGAAATG
GCCAAACTGGATGCCAACTAGGCCAGCGTTCCCTAGAGCCAGCACATGTCGTGGCCCCCACCTC
CAACTGGAAAGAAAGAAAAAAAAAGAAAAAAATCCCCTCGGCTCTTATGGGGAGGTGGGGGCTC
CTTTCCTTTTCAGTTCTGCTCATCTAGGGGAAATAAGGTTTTGGTTTCCGGTTTGATTGTTTTT
GGCCTTCTACAATGTTTTCTGTTAGCACTGATAGCTGGCATTGTCCTTGCTAAGCACTGCGTTC
CAGACCGTGTCTGACTTAGTTAACCTAGGAGATTTTATAGTTTTACTTTAATGAAGTCCTGATT
AACACAGAGCAGTGGAGAGACCGTGCCCCTGTGTCAGCAGCAGCAGCAGCAGCAGCAGGAAGCC
CCGTTTGTAACGCGTGTTGTGGTGCTTTACTGTACACCCAGTGGCGTTCTTTTTACTATTACGG
TTTTTCCCCCTCAGAAGAGAAAAAAAAATCATAAAATTTGCAACAGACCTAACTTTTGTTTACT
TTTTTGTCTTAATGATAGATTTGAAAATGAAAAATGTTAAAAAAAAAAAAAAAAAAAAAAAAAA
GG

hide sequence

RefSeq Acc Id:

XM_006253573 ⟹ XP_006253635

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,547,207 (+)	NCBI
mRatBN7.2	17	8,479,334 - 8,542,071 (+)	NCBI
Rnor_6.0	17	9,282,640 - 9,344,637 (+)	NCBI
Rnor_5.0	17	11,440,567 - 11,502,758 (+)	NCBI

Sequence:

show sequence

GCATTGTGGGAATCCCGGGGCCGCCGCGAGTGGTTCCAGTTCACTGGTTCCAGCGGAGCCGGGC
GGAGGGCGCGAGCGCGGGACGCGCGGGCGGGAAGCGAGGAGGCGTGGGCGGGCAGGCAGGAGTG
CGGAGCGGACCGGCGCAAGAGGCCGACCGGGCTCGGGCCCCTCACCGTGCAGCCGCCCGTGAGC
TTGCTGATCTGTTTCTGGGGCCGTCGCCATGTCGAGCCGTGGTGGGAAGAAGAAATCCACCAAG
ACCTCCCGGTCAGCCAAGGCCGGGGTCATCTTCCCCGTGGGACGGATGCTGCGGTACATCAAGA
AAGGCCACCCTAAGTATCGGATCGGAGTGGGGGCGCCTGTGTACATGGCTGCCGTACTGGAATA
CCTGACCGCTGAGATCCTGGAGCTGGCCGGCAATGCAGCGAGAGACAACAAGAAGGGGCGGGTC
ACACCGCGGCACATCCTGTTAGCAGTGGCCAATGATGAGGAGCTAAACCAGCTGCTAAAAGGAG
TCACCATAGCCAGTGGGGGCGTGTTGCCGAACATCCATCCTGAGTTGCTAGCGAAGAAACGAGG
ATCCAAGGGAAAATTGGAAGCCATCATCACGCCTCCACCAGCCAAAAAGGCCAAGTCTCCATCC
CAGAAGAAGCCAGTGGCTAAGAAAACAGGAGGCAAGAAAGGGGCCCGGAAGTCTAAGAAGAAGC
AGGGAGAAGTCAGCAAGGCAGCCAGCGCAGACAGTACAACGGAGGGCGCGCCTACAGACGGCTT
TACTGTCCTCTCTACCAAGAGCCTCTTCCTCGGCCAGAAGCTGAACCTTATTCACAGTGAAATC
AGTAATTTAGCCGGCTTTGAGGTGGAGGCCATAATCAATCCTACCAATGCTGACATTGACCTTA
AAGATGACCTAGGAAGCACACTGGAGAAGAAAGGTGGCAAGGAGTTTGTAGAAGCTGTTCTGGA
ACTTCGGAAAAAGAATGGGCCCTTGGAAGTAGCTGGAGCTGCTGTTAGTGCAGGCCACGGCCTG
CCTGCCAAGTTTGTGATCCACTGTAACAGTCCTGTCTGGGGCGCAGACAAATGTGAAGAACTTC
TAGAAAAGACGGTGAAAAACTGCCTGGCTCTAGCTGATGACAGAAAGCTGAAGTCCATCGCCTT
CCCGTCTATTGGCAGTGGCAGGAACGGGTTCCCGAAGCAGACAGCCGCCCAACTCATTCTGAAG
GCCATCTCCAGCTACTTTGTGTCCACTATGTCGTCCTCCATCAAAACTGTGTACTTTGTGCTTT
TTGACAGTGAGAGCATAGGCATCTACGTGCAGGAAATGGCCAAACTGGATGCCAACTAGGCCAG
CGTTCCCTAGAGCCAGCACATGTCGTGGCCCCCACCTCCAACTGGAAAGAAAGAAAAAAAAAGA
AAAAAATCCCCTCGGCTCTTATGGGGAGGTGGGGGCTCCTTTCCTTTTCAGTTCTGCTCATCTA
GGGGAAATAAGGTTTTGGTTTCCGGTTTGATTGTTTTTGGCCTTCTACAATGTTTTCTGTTAGC
ACTGATAGCTGGCATTGTCCTTGCTAAGCACTGCGTTCCAGACCGTGTCTGACTTAGTTAACCT
AGGAGATTTTATAGTTTTACTTTAATGAAGTCCTGATTAACACAGAGCAGTGGAGAGACCGTGC
CCCTGTGTCAGCAGCAGCAGCAGCAGCAGCAGGAAGCCCCGTTTGTAACGCGTGTTGTGGTGCT
TTACTGTACACCCAGTGGCGTTCTTTTTACTATTACGGTTTTTCCCCCTCAGAAGAGAAAAAAA
AATCATAAAATTTGCAACAGACCTAA

hide sequence

RefSeq Acc Id:

XM_006253575 ⟹ XP_006253637

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,547,207 (+)	NCBI
mRatBN7.2	17	8,479,333 - 8,542,071 (+)	NCBI
Rnor_6.0	17	9,282,640 - 9,344,637 (+)	NCBI
Rnor_5.0	17	11,440,567 - 11,502,758 (+)	NCBI

Sequence:

show sequence

GCATTGTGGGAATCCCGGGGCCGCCGCGAGTGGTTCCAGTTCACTGGTTCCAGCGGAGCCGGGC
GGAGGGCGCGAGCGCGGGACGCGCGGGCGGGAAGCGAGGAGGCGTGGGCGGGCAGGCAGGAGTG
CGGAGCGGACCGGCGCAAGAGGCCGACCGGGCTCGGGCCCCTCACCGTGCAGCCGCCCGTGAGC
TTGCTGATCTGTTTCTGGGGCCGTCGCCATGTCGAGCCGTGGTGGGAAGAAGAAATCCACCAAG
ACCTCCCGGTCAGCCAAGGCCGGGGTCATCTTCCCCGTGGGACGGATGCTGCGGTACATCAAGA
AAGGCCACCCTAAGTATCGGATCGGAGTGGGGGCGCCTGTGTACATGGCTGCCGTACTGGAATA
CCTGACCGCTGAGATCCTGGAGCTGGCCGGCAATGCAGCGAGAGACAACAAGAAGGGGCGGGTC
ACACCGCGGCACATCCTGTTAGCAGTGGCCAATGATGAGGAGCTAAACCAGCTGCTAAAAGGAG
TCACCATAGCCAGTGGGGGCGTGTTGCCGAACATCCATCCTGAGTTGCTAGCGAAGAAACGAGG
ATCCAAGGGAAAATTGGAAGCCATCATCACGCCTCCACCAGCCAAAAAGGCCAAGTCTCCATCC
CAGAAGAAGCCAGTGGCTAAGAAAACAGGAGGCAAGAAAGGGGCCCGGAAGTCTAAGAAGAAGC
AGGGAGAAGTCAGCAAGGCAGCCAGCGCAGACAGTACAACGGAGGGCGCGCCTACAGACGGCTT
TACTGTCCTCTCTACCAAGAGCCTCTTCCTCGGCCAGAAGTTGCAAGTTGTTCAGGCTGACATT
GCCTCGATCGACAGTGATGCTGTCGTTCACCCGACAAACACTGACTTCTACATCGGTGGTGAAG
TAGGAAGCACACTGGAGAAGAAAGGTGGCAAGGAGTTTGTAGAAGCTGTTCTGGAACTTCGGAA
AAAGAATGGGCCCTTGGAAGTAGCTGGAGCTGCTGTTAGTGCAGGCCACGGCCTGCCTGCCAAG
TTTGTGATCCACTGTAACAGTCCTGTCTGGGGCGCAGACAAATGTGAAGAACTTCTAGAAAAGA
CGGTGAAAAACTGCCTGGCTCTAGCTGATGACAGAAAGCTGAAGTCCATCGCCTTCCCGTCTAT
TGGCAGTGGCAGGAACGGGTTCCCGAAGCAGACAGCCGCCCAACTCATTCTGAAGGCCATCTCC
AGCTACTTTGTGTCCACTATGTCGTCCTCCATCAAAACTGTGTACTTTGTGCTTTTTGACAGTG
AGAGCATAGGCATCTACGTGCAGGAAATGGCCAAACTGGATGCCAACTAGGCCAGCGTTCCCTA
GAGCCAGCACATGTCGTGGCCCCCACCTCCAACTGGAAAGAAAGAAAAAAAAAGAAAAAAATCC
CCTCGGCTCTTATGGGGAGGTGGGGGCTCCTTTCCTTTTCAGTTCTGCTCATCTAGGGGAAATA
AGGTTTTGGTTTCCGGTTTGATTGTTTTTGGCCTTCTACAATGTTTTCTGTTAGCACTGATAGC
TGGCATTGTCCTTGCTAAGCACTGCGTTCCAGACCGTGTCTGACTTAGTTAACCTAGGAGATTT
TATAGTTTTACTTTAATGAAGTCCTGATTAACACAGAGCAGTGGAGAGACCGTGCCCCTGTGTC
AGCAGCAGCAGCAGCAGCAGCAGGAAGCCCCGTTTGTAACGCGTGTTGTGGTGCTTTACTGTAC
ACCCAGTGGCGTTCTTTTTACTATTACGGTTTTTCCCCCTCAGAAGAGAAAAAAAAATCATAAA
ATTTGCAACAGACCTAA

hide sequence

RefSeq Acc Id:

XM_006253576 ⟹ XP_006253638

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,340 - 8,547,207 (+)	NCBI
mRatBN7.2	17	8,479,334 - 8,542,071 (+)	NCBI
Rnor_6.0	17	9,282,640 - 9,344,637 (+)	NCBI
Rnor_5.0	17	11,440,567 - 11,502,758 (+)	NCBI

Sequence:

show sequence

GCATTGTGGGAATCCCGGGGCCGCCGCGAGTGGTTCCAGTTCACTGGTTCCAGCGGAGCCGGGC
GGAGGGCGCGAGCGCGGGACGCGCGGGCGGGAAGCGAGGAGGCGTGGGCGGGCAGGCAGGAGTG
CGGAGCGGACCGGCGCAAGAGGCCGACCGGGCTCGGGCCCCTCACCGTGCAGCCGCCCGTGAGC
TTGCTGATCTGTTTCTGGGGCCGTCGCCATGTCGAGCCGTGGTGGGAAGAAGAAATCCACCAAG
ACCTCCCGGTCAGCCAAGGCCGGGGTCATCTTCCCCGTGGGACGGATGCTGCGGTACATCAAGA
AAGGCCACCCTAAGTATCGGATCGGAGTGGGGGCGCCTGTGTACATGGCTGCCGTACTGGAATA
CCTGACCGCTGAGATCCTGGAGCTGGCCGGCAATGCAGCGAGAGACAACAAGAAGGGGCGGGTC
ACACCGCGGCACATCCTGTTAGCAGTGGCCAATGATGAGGAGCTAAACCAGCTGCTAAAAGGAG
TCACCATAGCCAGTGGGGGCGTGTTGCCGAACATCCATCCTGAGTTGCTAGCGAAGAAACGAGG
ATCCAAGGGAAAATTGGAAGCCATCATCACGCCTCCACCAGCCAAAAAGGCCAAGTCTCCATCC
CAGAAGAAGCCAGTGGCTAAGAAAACAGGAGGCAAGAAAGGGGCCCGGAAGTCTAAGAAGCAGG
GAGAAGTCAGCAAGGCAGCCAGCGCAGACAGTACAACGGAGGGCGCGCCTACAGACGGCTTTAC
TGTCCTCTCTACCAAGAGCCTCTTCCTCGGCCAGAAGTTGCAAGTTGTTCAGGCTGACATTGCC
TCGATCGACAGTGATGCTGTCGTTCACCCGACAAACACTGACTTCTACATCGGTGGTGAAGTAG
GAAGCACACTGGAGAAGAAAGGTGGCAAGGAGTTTGTAGAAGCTGTTCTGGAACTTCGGAAAAA
GAATGGGCCCTTGGAAGTAGCTGGAGCTGCTGTTAGTGCAGGCCACGGCCTGCCTGCCAAGTTT
GTGATCCACTGTAACAGTCCTGTCTGGGGCGCAGACAAATGTGAAGAACTTCTAGAAAAGACGG
TGAAAAACTGCCTGGCTCTAGCTGATGACAGAAAGCTGAAGTCCATCGCCTTCCCGTCTATTGG
CAGTGGCAGGAACGGGTTCCCGAAGCAGACAGCCGCCCAACTCATTCTGAAGGCCATCTCCAGC
TACTTTGTGTCCACTATGTCGTCCTCCATCAAAACTGTGTACTTTGTGCTTTTTGACAGTGAGA
GCATAGGCATCTACGTGCAGGAAATGGCCAAACTGGATGCCAACTAGGCCAGCGTTCCCTAGAG
CCAGCACATGTCGTGGCCCCCACCTCCAACTGGAAAGAAAGAAAAAAAAAGAAAAAAATCCCCT
CGGCTCTTATGGGGAGGTGGGGGCTCCTTTCCTTTTCAGTTCTGCTCATCTAGGGGAAATAAGG
TTTTGGTTTCCGGTTTGATTGTTTTTGGCCTTCTACAATGTTTTCTGTTAGCACTGATAGCTGG
CATTGTCCTTGCTAAGCACTGCGTTCCAGACCGTGTCTGACTTAGTTAACCTAGGAGATTTTAT
AGTTTTACTTTAATGAAGTCCTGATTAACACAGAGCAGTGGAGAGACCGTGCCCCTGTGTCAGC
AGCAGCAGCAGCAGCAGCAGGAAGCCCCGTTTGTAACGCGTGTTGTGGTGCTTTACTGTACACC
CAGTGGCGTTCTTTTTACTATTACGGTTTTTCCCCCTCAGAAGAGAAAAAAAAATCATAAAATT
TGCAACAGACCTAA

hide sequence

RefSeq Acc Id:

XM_039095579 ⟹ XP_038951507

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,523,972 (+)	NCBI
mRatBN7.2	17	8,479,332 - 8,518,775 (+)	NCBI

RefSeq Acc Id:

XM_039095580 ⟹ XP_038951508

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,523,972 (+)	NCBI
mRatBN7.2	17	8,479,334 - 8,518,775 (+)	NCBI

RefSeq Acc Id:

XR_005495266

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,537,427 (+)	NCBI
mRatBN7.2	17	8,479,331 - 8,542,010 (+)	NCBI

RefSeq Acc Id:

XR_005495267

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,535,443 (+)	NCBI
mRatBN7.2	17	8,479,331 - 8,530,214 (+)	NCBI

RefSeq Acc Id:

XR_010058850

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,537,427 (+)	NCBI

RefSeq Acc Id:

XR_010058851

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	8,484,512 - 8,537,427 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_058878	(Get FASTA)	NCBI Sequence Viewer
	XP_006253635	(Get FASTA)	NCBI Sequence Viewer
	XP_006253637	(Get FASTA)	NCBI Sequence Viewer
	XP_006253638	(Get FASTA)	NCBI Sequence Viewer
	XP_038951507	(Get FASTA)	NCBI Sequence Viewer
	XP_038951508	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA41560	(Get FASTA)	NCBI Sequence Viewer
	AAA41561	(Get FASTA)	NCBI Sequence Viewer
	AAB38330	(Get FASTA)	NCBI Sequence Viewer
	AAH89093	(Get FASTA)	NCBI Sequence Viewer
	EDL93947	(Get FASTA)	NCBI Sequence Viewer
	EDL93948	(Get FASTA)	NCBI Sequence Viewer
	EDL93949	(Get FASTA)	NCBI Sequence Viewer
	EDL93950	(Get FASTA)	NCBI Sequence Viewer
	EDL93951	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000015632
	ENSRNOP00000015632.5
	ENSRNOP00000049143
	ENSRNOP00000049143.4
	ENSRNOP00000076427.1
	ENSRNOP00000083083
	ENSRNOP00000083083.1
GenBank Protein	Q02874	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_058878 ⟸ NM_017182

- UniProtKB:

Q63325 (UniProtKB/Swiss-Prot), O09140 (UniProtKB/Swiss-Prot), Q02874 (UniProtKB/Swiss-Prot), A6KAN9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSSRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELA
GNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRGSKGKLEAII
TPPPAKKAKSPSQKKPVAKKTGGKKGARKSKKQGEVSKAASADSTTEGAPTDGFTVLSTKSLFL
GQKLNLIHSEISNLAGFEVEAIINPTNADIDLKDDLGSTLEKKGGKEFVEAVLELRKKNGPLEV
AGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDRKLKSIAFPSIGSGRNGF
PKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKLDAN

hide sequence

RefSeq Acc Id:

XP_006253635 ⟸ XM_006253573

- Peptide Label:

isoform X1

- Sequence:

show sequence

MSSRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELA
GNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRGSKGKLEAII
TPPPAKKAKSPSQKKPVAKKTGGKKGARKSKKKQGEVSKAASADSTTEGAPTDGFTVLSTKSLF
LGQKLNLIHSEISNLAGFEVEAIINPTNADIDLKDDLGSTLEKKGGKEFVEAVLELRKKNGPLE
VAGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDRKLKSIAFPSIGSGRNG
FPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKLDAN

hide sequence

RefSeq Acc Id:	XP_006253637 ⟸ XM_006253575
- Peptide Label:	isoform X2
- UniProtKB:	Q63325 (UniProtKB/Swiss-Prot), Q02874 (UniProtKB/Swiss-Prot), O09140 (UniProtKB/Swiss-Prot), A0A140TAB4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSSRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELA GNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRGSKGKLEAII TPPPAKKAKSPSQKKPVAKKTGGKKGARKSKKKQGEVSKAASADSTTEGAPTDGFTVLSTKSLF LGQKLQVVQADIASIDSDAVVHPTNTDFYIGGEVGSTLEKKGGKEFVEAVLELRKKNGPLEVAG AAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDRKLKSIAFPSIGSGRNGFPK QTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKLDAN hide sequence

RefSeq Acc Id:	XP_006253638 ⟸ XM_006253576
- Peptide Label:	isoform X3
- UniProtKB:	Q63325 (UniProtKB/Swiss-Prot), O09140 (UniProtKB/Swiss-Prot), Q02874 (UniProtKB/Swiss-Prot), A6KAP1 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSSRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELA GNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRGSKGKLEAII TPPPAKKAKSPSQKKPVAKKTGGKKGARKSKKQGEVSKAASADSTTEGAPTDGFTVLSTKSLFL GQKLQVVQADIASIDSDAVVHPTNTDFYIGGEVGSTLEKKGGKEFVEAVLELRKKNGPLEVAGA AVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDRKLKSIAFPSIGSGRNGFPKQ TAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKLDAN hide sequence

RefSeq Acc Id:

ENSRNOP00000049143 ⟸ ENSRNOT00000051702

RefSeq Acc Id:

ENSRNOP00000015632 ⟸ ENSRNOT00000015632

RefSeq Acc Id:	XP_038951507 ⟸ XM_039095579
- Peptide Label:	isoform X4
- UniProtKB:	A6KAP2 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951508 ⟸ XM_039095580
- Peptide Label:	isoform X5
- UniProtKB:	A0A8I5ZW79 (UniProtKB/TrEMBL), A6KAP2 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000076427 ⟸ ENSRNOT00000099134

RefSeq Acc Id:

ENSRNOP00000083083 ⟸ ENSRNOT00000117731

Protein Domains

Histone H2A Histone H2A C-terminal Histone H2A/H2B/H3 Macro

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q02874-F1-model_v2	AlphaFold	Q02874	1-371	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621462	AgrOrtholog
BioCyc Gene	G2FUF-10243	BioCyc
Ensembl Genes	ENSRNOG00000011523	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000015632.7	UniProtKB/TrEMBL
	ENSRNOT00000051702	ENTREZGENE
	ENSRNOT00000051702.7	UniProtKB/Swiss-Prot
	ENSRNOT00000099134.1	UniProtKB/TrEMBL
	ENSRNOT00000117731.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.20.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.40.220.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7126329	IMAGE-MGC_LOAD
InterPro	Core_histone_macro-H2A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Histone-fold	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Histone_H2A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Histone_H2A/H2B/H3	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Histone_H2A_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Macro_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Macro_dom-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Macro_H2A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:29384	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE	MGC:105515	IMAGE-MGC_LOAD
NCBI Gene	29384	ENTREZGENE
PANTHER	CORE HISTONE MACRO-H2A.1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR23430	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Histone	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Histone_H2A_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Macro	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Macroh2a1	PhenoGen
PIRSF	Core_histone_macro-H2A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS	HISTONEH2A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	MACRO	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000011523	RatGTEx
SMART	A1pp	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	H2A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF47113	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF52949	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A140TAB4	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I5Y8W4_RAT	UniProtKB/TrEMBL
	A0A8I5ZW79	ENTREZGENE, UniProtKB/TrEMBL
	A6KAN9	ENTREZGENE, UniProtKB/TrEMBL
	A6KAP1	ENTREZGENE, UniProtKB/TrEMBL
	A6KAP2	ENTREZGENE, UniProtKB/TrEMBL
	H2AY_RAT	UniProtKB/Swiss-Prot
	O09140	ENTREZGENE
	Q02874	ENTREZGENE
	Q63325	ENTREZGENE
UniProt Secondary	O09140	UniProtKB/Swiss-Prot
	Q63325	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2019-08-20	Macroh2a1	macroH2A.1 histone	H2afy	H2A histone family, member Y	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-02-26	H2afy	H2A histone family, member Y			Symbol and Name status set to approved	625702	APPROVED
2002-08-07	H2afy	H2A histone family, member Y			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_cellular_localization	localized to nucleosomes	728409

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 - MGI

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - MGI

RGD Manual Annotations

Imported Annotations - KEGG (archival)