ALKBH1 (alkB homolog 1, histone H2A dioxygenase)

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Gene: ALKBH1 (alkB homolog 1, histone H2A dioxygenase) Pan paniscus

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Symbol:

ALKBH1

Name:

alkB homolog 1, histone H2A dioxygenase

RGD ID:

11899550

Description:

ENCODES a protein that exhibits 2-oxoglutarate-dependent dioxygenase activity (inferred); broad specificity oxidative DNA demethylase activity (inferred); chemoattractant activity (inferred); INVOLVED IN cell differentiation (inferred); developmental growth (inferred); DNA repair (inferred); FOUND IN cytoplasm (inferred); endoplasmic reticulum (inferred); euchromatin (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

alkB, alkylation repair homolog 1; alkylated DNA repair protein alkB homolog 1; nucleic acid dioxygenase ALKBH1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

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	15	78,758,377 - 78,793,982 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	77,975,514 - 78,010,487 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	58,227,094 - 58,262,107 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	77,428,033 - 77,462,905 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	77,428,033 - 77,462,905 (-)	Ensembl	panpan1.1		panPan2

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell differentiation (IEA)

developmental growth (IEA)

DNA repair (IEA)

in utero embryonic development (IEA)

negative regulation of neuron apoptotic process (IEA)

neuron migration (IEA)

neuron projection development (IEA)

oxidative RNA demethylation (IEA)

placenta development (IEA)

positive chemotaxis (IEA)

positive regulation of gene expression, epigenetic (IEA)

regulation of gene expression (IEA)

regulation of mitochondrial translation (IEA)

regulation of translational elongation (IEA)

regulation of translational initiation (IEA)

regulation of translational initiation by tRNA modification (IEA)

tRNA wobble cytosine modification (IEA)

Cellular Component

cytoplasm (IEA)

endoplasmic reticulum (IEA)

euchromatin (IEA)

mitochondrion (IEA)

nucleoplasm (IEA)

nucleus (IEA)

Molecular Function

2-oxoglutarate-dependent dioxygenase activity (IEA)

broad specificity oxidative DNA demethylase activity (IEA)

chemoattractant activity (IEA)

class I DNA-(apurinic or apyrimidinic site) endonuclease activity (IEA)

dioxygenase activity (IEA)

ferrous iron binding (IEA)

metal ion binding (IEA)

oxidative RNA demethylase activity (IEA)

tRNA binding (IEA)

tRNA demethylase activity (IEA)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

ALKBH1
(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	15	78,758,377 - 78,793,982 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	77,975,514 - 78,010,487 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	58,227,094 - 58,262,107 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	77,428,033 - 77,462,905 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	77,428,033 - 77,462,905 (-)	Ensembl	panpan1.1		panPan2

ALKBH1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	77,672,404 - 77,708,023 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	77,672,404 - 77,708,023 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	14	78,138,747 - 78,174,366 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	77,208,502 - 77,244,109 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	14	77,209,146 - 77,244,097	NCBI
Celera	14	58,177,259 - 58,212,868 (-)	NCBI		Celera
Cytogenetic Map	14	q24.3	NCBI
HuRef	14	58,304,737 - 58,340,347 (-)	NCBI		HuRef
CHM1_1	14	78,078,214 - 78,113,828 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	14	71,881,741 - 71,917,378 (-)	NCBI		T2T-CHM13v2.0

Nrp
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	87,489,618 - 87,490,787 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	87,472,610 - 87,490,787 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	87,442,848 - 87,444,017 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	87,425,840 - 87,444,017 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	88,783,798 - 88,784,967 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
Celera	12	88,907,470 - 88,908,639 (-)	NCBI		Celera
Cytogenetic Map	12	D2	NCBI

Alkbh1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	112,799,234 - 112,819,708 (-)	NCBI		GRCr8
mRatBN7.2	6	107,068,301 - 107,088,784 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	107,068,475 - 107,088,759 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	107,236,731 - 107,257,698 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	107,535,548 - 107,556,515 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	106,905,246 - 106,926,213 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	111,456,096 - 111,476,829 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	111,456,187 - 111,477,090 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	120,737,001 - 120,757,497 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	111,662,506 - 111,682,061 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	111,667,836 - 111,685,567 (-)	NCBI
Celera	6	104,888,877 - 104,908,497 (-)	NCBI		Celera
Cytogenetic Map	6	q31	NCBI

Alkbh1
(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_004955438	1,531,114 - 1,556,481 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955438	1,531,114 - 1,556,483 (-)	NCBI	ChiLan1.0	ChiLan1.0

ALKBH1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	50,444,994 - 50,471,151 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	50,445,748 - 50,471,135 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	50,132,626 - 50,158,585 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	50,679,265 - 50,705,466 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	50,676,439 - 50,705,427 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	50,341,318 - 50,367,481 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	50,364,432 - 50,390,390 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	50,763,323 - 50,789,283 (-)	NCBI		UU_Cfam_GSD_1.0

Alkbh1
(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_024408640	25,582,212 - 25,609,105 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936488	6,459,195 - 6,486,756 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ALKBH1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	100,676,632 - 100,710,401 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	100,676,778 - 100,710,414 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

ALKBH1
(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	24	54,932,455 - 54,967,394 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666053	43,121,434 - 43,154,011 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Alkbh1
(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_004624734	24,196,845 - 24,220,467 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624734	24,196,889 - 24,259,711 (+)	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_003808881	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JARIFH020000015	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSPPAT00000060595 ⟹ ENSPPAP00000037694

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	14	77,428,033 - 77,462,905 (-)	Ensembl

Ensembl Acc Id:

ENSPPAT00000060599 ⟹ ENSPPAP00000037698

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	14	77,434,894 - 77,462,810 (-)	Ensembl

RefSeq Acc Id:

XM_003808881 ⟹ XP_003808929

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	15	78,758,377 - 78,793,982 (-)	NCBI
NHGRI_mPanPan1	14	77,975,514 - 78,010,487 (-)	NCBI
Mhudiblu_PPA_v0	14	58,227,094 - 58,262,107 (-)	NCBI
PanPan1.1	14	77,428,033 - 77,462,905 (-)	NCBI

Sequence:

show sequence

GCACCTTCTCGAGCCGAGGTCGCGGCCCCGGAAAAAATTTCCGGATCCGGAACACGAGAGAATC
TGCTTCCGGATCAGAGGGTATAGGCCGCGAGATGGGGAAGATGGCAGCGGCCGTGGGCTCTGTG
GCGACTCTGGCGACTGAGCCCGGGGAGGACGCCTTTCGGAAACTTTTCCGCTTCTACCGTCAGA
GCCGGCCCGGGACCGCAGACCTGGAAGGGGTCATCGACTTCTCGGCGGCCCACGCAGCCCGTGG
CAAGGGTCCTGGTGCCCAAAAGGTGATCAAATCTCAGCTAAATGTGTCTTCTGTCAGTGAGCAG
AATGCATATAGAGCAGGTCTTCAGCCCGTCAGCAAGTGGCAAGCCTATGGACTCAAAGGCTATC
CTGGGTTTATTTTTATCCCAAACCCCTTCCTCCCAGGTTACCAGTGGCACTGGGTGAAACAGTG
CCTTAAGTTATATTCCCAGAAACCTAATGTATGTAACCTGGACAAACACATGTCTAAAGAAGAG
ACCCAAGATCTGTGGGAACAGAGCAAAGAGTTCCTCAGGTATAAAGAAGCAACTAAACGGAGAC
CCCGAAGTTTACTGGAGAAACTGCGTTGGGTGACCGTAGGCTACCATTATAACTGGGACAGTAA
GAAATACTCAGCAGATCATTACACACCTTTCCCTTCTGACCTGGGTTTCCTCTCAGAACAAGTA
GCCGCTGCCTGTGGATTTGAGGATTTCCGAGCCGAAGCAGGGATCCTGAATTACTACCGCCTGG
ACTCCACACTGGGAATCCACGTAGACAGATCTGAGCTAGATCACTCCAAACCCTTGCTGTCATT
CAGCTTTGGACAGTCCGCCATCTTTCTCCTGGGTGGTCTTCAAAGGGATGAGGCCCCCACGGCC
ATGTTTATGCACAGTGGTGACATCATGATAATGTCGGGTTTCAGCCGCCTCTTGAACCACGCAG
TCCCTCGTGTCCTTCCAAATCCAGAAGGGGAAGGCCTGCCTCACTGCCTAGAGGCACCTCTCCC
TGCTGTCCTCCCGAGAGATTCAATGGTAGAGCCTTGTTCTATGGAGGACTGGCAGGTGTGTGCC
AGCTACTTGAAGACCGCTCGTGTTAACATGACTGTCCGACAGGTCCTGGCCACAGACCAGAATT
TCCCTCTAGAACCCATCAAGGATGAAAAAAGAGACATCAGTACAGAAGGTTTCTGCCATCTGGA
TGACCAGAATAGCGAAGTAAAACGGGCCAGGATAAACCCTGACAGCTGAGACTTGGAGATCCCA
TCCTTTTTACTCAGGCACCTGCTTACCGTAAATGATCATGTTATTGTGTATTGCCGTGGACTTC
AGCACCCAGACAAGCCAAAAACAGAGACAAGGAAGAACTCATTGTTGATCACACTGTTGCCTTG
GAACCCACGCAGAAGTAAACTCAGCCACTTTGCTCAGAGAAGTGTTTGACATGGTCTGTTCCTA
GTTACATGTTGGCTGTAATGTATGTTGAGAAGTCAGTCCAAGGAGGTATGTTCTTCCACAACAG
CCTTCTCAGCCTCTGCTATTTCCTTTGAGGAAGGTAGAAGTGAGTTTCCATGTTTGCAGAGTAT
TTAAATACCTCAGATTTTATTAATGAGAAATACAGTACCCCTCCCTCCACTCCATCTGGTAATT
TATGGTAAAATTGTGGTTCTGTGAACCAGCTATTAGTCTCATCTTCTTAACTCCCTGAGGCATC
ATCAAATTCTTTGATCTTCTCTTCCACCTCTCTGGCTCTCATGGAAGAATCCTTTACACATGAA
AACAATGGAACTGGAAAATCTTGTCTCTTAGAAAAGAAATTAATCACAACTATCTCTCTTGCCT
AAAAGATAAATATAGGTAAACCCAAGGAAAGGGGAATTTAGTTTCTCTACATGTCATTTCGGTC
TCCAAACTCCCTGTTGGCTTTTTAATGCAATTTTAATTGTTGGAATAAGAAAGTCCCAAGGGTG
TTTTGTTACTGTTTTCTCCATGAATAAACTCACTTGATTTTAAATTAAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_003808929	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSPPAP00000037694
	ENSPPAP00000037694.1
	ENSPPAP00000037698.1

RefSeq Acc Id:

XP_003808929 ⟸ XM_003808881

- UniProtKB:

A0A2R9C7C9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGKMAAAVGSVATLATEPGEDAFRKLFRFYRQSRPGTADLEGVIDFSAAHAARGKGPGAQKVIK
SQLNVSSVSEQNAYRAGLQPVSKWQAYGLKGYPGFIFIPNPFLPGYQWHWVKQCLKLYSQKPNV
CNLDKHMSKEETQDLWEQSKEFLRYKEATKRRPRSLLEKLRWVTVGYHYNWDSKKYSADHYTPF
PSDLGFLSEQVAAACGFEDFRAEAGILNYYRLDSTLGIHVDRSELDHSKPLLSFSFGQSAIFLL
GGLQRDEAPTAMFMHSGDIMIMSGFSRLLNHAVPRVLPNPEGEGLPHCLEAPLPAVLPRDSMVE
PCSMEDWQVCASYLKTARVNMTVRQVLATDQNFPLEPIKDEKRDISTEGFCHLDDQNSEVKRAR
INPDS

hide sequence

Ensembl Acc Id:

ENSPPAP00000037698 ⟸ ENSPPAT00000060599

Ensembl Acc Id:

ENSPPAP00000037694 ⟸ ENSPPAT00000060595

Protein Domains

Fe2OG dioxygenase

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSPPAG00000041592	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSPPAT00000060595.1	UniProtKB/TrEMBL
	ENSPPAT00000060599.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.120.590	UniProtKB/TrEMBL
InterPro	Alkb	UniProtKB/TrEMBL
	AlkB-like	UniProtKB/TrEMBL
	AlkB-like_sf	UniProtKB/TrEMBL
	Oxoglu/Fe-dep_dioxygenase	UniProtKB/TrEMBL
KEGG Report	pps:100996152	UniProtKB/TrEMBL
NCBI Gene	ALKBH1	ENTREZGENE
PANTHER	NUCLEIC ACID DIOXYGENASE ALKBH1	UniProtKB/TrEMBL
	PTHR16557	UniProtKB/TrEMBL
Pfam	2OG-FeII_Oxy_2	UniProtKB/TrEMBL
PROSITE	FE2OG_OXY	UniProtKB/TrEMBL
Superfamily-SCOP	Clavaminate synthase-like	UniProtKB/TrEMBL
UniProt	A0A2R9C7C9	ENTREZGENE, UniProtKB/TrEMBL
	A0A2R9C9S2_PANPA	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)

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