Alkbh3 (alkB homolog 3, alpha-ketoglutarate dependent dioxygenase) - Rat Genome Database

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Gene: Alkbh3 (alkB homolog 3, alpha-ketoglutarate dependent dioxygenase) Ictidomys tridecemlineatus
Analyze
Symbol: Alkbh3
Name: alkB homolog 3, alpha-ketoglutarate dependent dioxygenase (Ensembl:alkB homolog 3, alpha-ketoglutaratedependent dioxygenase)
RGD ID: 12637215
Description: ENCODES a protein that exhibits 2-oxoglutarate-dependent dioxygenase activity (ortholog); cytosine C-5 DNA demethylase activity (ortholog); endonuclease activity (ortholog); INVOLVED IN negative regulation of cytoplasmic translation (ortholog); ASSOCIATED WITH genetic disease (ortholog); intellectual disability (ortholog); FOUND IN cytosol (inferred); mitochondrion (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: alkB homolog 3, alpha-ketoglutaratedependent dioxygenase; alkB, alkylation repair homolog 3; alpha-ketoglutarate-dependent dioxygenase alkB homolog 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494722,615,131 - 22,666,079 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365624,741,371 - 4,777,727 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365624,743,595 - 4,777,685 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA)
mitochondrion  (IEA)
nucleoplasm  (IEA)
nucleus  (IEA)

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Alkbh3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494722,615,131 - 22,666,079 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365624,741,371 - 4,777,727 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365624,743,595 - 4,777,685 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ALKBH3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381143,880,831 - 43,920,274 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1143,880,811 - 43,920,274 (+)EnsemblGRCh38hg38GRCh38
GRCh371143,902,381 - 43,941,824 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361143,858,971 - 43,898,389 (+)NCBINCBI36Build 36hg18NCBI36
Celera1144,048,227 - 44,087,676 (+)NCBICelera
Cytogenetic Map11p11.2NCBI
HuRef1143,611,668 - 43,651,108 (+)NCBIHuRef
CHM1_11143,901,678 - 43,940,820 (+)NCBICHM1_1
T2T-CHM13v2.01144,036,210 - 44,075,625 (+)NCBIT2T-CHM13v2.0
Alkbh3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39293,810,979 - 93,841,099 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl293,810,895 - 93,841,152 (-)EnsemblGRCm39 Ensembl
GRCm38293,980,624 - 94,010,824 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl293,980,550 - 94,010,807 (-)EnsemblGRCm38mm10GRCm38
MGSCv37293,820,791 - 93,850,887 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36293,781,391 - 93,811,646 (-)NCBIMGSCv36mm8
Celera295,377,139 - 95,407,273 (-)NCBICelera
Cytogenetic Map2E1NCBI
cM Map251.62NCBI
Alkbh3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83100,394,942 - 100,429,466 (-)NCBIGRCr8
mRatBN7.2379,939,515 - 79,972,820 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl379,939,600 - 79,972,000 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx383,413,118 - 83,445,373 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0392,012,208 - 92,044,463 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0389,857,713 - 89,889,968 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0382,874,242 - 82,907,467 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl382,874,248 - 82,906,581 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0389,575,451 - 89,608,158 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4378,386,098 - 78,418,432 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1378,282,525 - 78,314,860 (-)NCBI
Celera379,141,033 - 79,172,722 (-)NCBICelera
Cytogenetic Map3q31NCBI
Alkbh3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554223,657,765 - 3,695,409 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554223,660,504 - 3,695,352 (-)NCBIChiLan1.0ChiLan1.0
ALKBH3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2946,095,666 - 46,135,186 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11146,101,637 - 46,141,224 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01143,841,083 - 43,880,608 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11144,336,655 - 44,376,058 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1144,336,655 - 44,376,057 (+)Ensemblpanpan1.1panPan2
ALKBH3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11825,864,041 - 25,899,226 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1825,824,877 - 25,899,079 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1825,551,100 - 25,585,936 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01826,486,584 - 26,521,476 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11825,996,121 - 26,030,947 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01825,641,660 - 25,676,520 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01826,253,706 - 26,288,540 (-)NCBIUU_Cfam_GSD_1.0
ALKBH3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl218,408,987 - 18,446,056 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1218,408,987 - 18,448,285 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2220,011,987 - 20,048,360 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ALKBH3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,463,744 - 21,505,940 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,462,516 - 21,505,934 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038118,701,961 - 118,743,776 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Alkbh3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247674,103,446 - 4,139,345 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247674,088,173 - 4,139,288 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000006060   ⟹   ENSSTOP00000005422
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365624,741,371 - 4,777,727 (-)Ensembl
RefSeq Acc Id: XM_005330040   ⟹   XP_005330097
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494722,628,773 - 22,666,078 (-)NCBI
SpeTri2.0NW_0049365624,743,595 - 4,777,685 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040284474   ⟹   XP_040140408
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494722,628,773 - 22,665,867 (-)NCBI
RefSeq Acc Id: XM_040284475   ⟹   XP_040140409
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494722,640,464 - 22,666,079 (-)NCBI
RefSeq Acc Id: XM_040284476   ⟹   XP_040140410
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494722,636,903 - 22,666,078 (-)NCBI
RefSeq Acc Id: XM_040284478   ⟹   XP_040140412
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494722,615,131 - 22,666,078 (-)NCBI
RefSeq Acc Id: XR_005733535
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494722,615,134 - 22,666,078 (-)NCBI
Protein Sequences
Protein RefSeqs XP_005330097 (Get FASTA)   NCBI Sequence Viewer  
  XP_040140408 (Get FASTA)   NCBI Sequence Viewer  
  XP_040140409 (Get FASTA)   NCBI Sequence Viewer  
  XP_040140410 (Get FASTA)   NCBI Sequence Viewer  
  XP_040140412 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000005422.3
GenBank Protein KAG3285440 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005330097   ⟸   XM_005330040
- Peptide Label: isoform X1
- UniProtKB: I3M775 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040140412   ⟸   XM_040284478
- Peptide Label: isoform X4
RefSeq Acc Id: XP_040140408   ⟸   XM_040284474
- Peptide Label: isoform X1
- UniProtKB: I3M775 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040140410   ⟸   XM_040284476
- Peptide Label: isoform X3
RefSeq Acc Id: XP_040140409   ⟸   XM_040284475
- Peptide Label: isoform X2
RefSeq Acc Id: ENSSTOP00000005422   ⟸   ENSSTOT00000006060
Protein Domains
Fe2OG dioxygenase


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000006060 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000006060.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.590 UniProtKB/TrEMBL
InterPro AlkB-like UniProtKB/TrEMBL
  AlkB-like_sf UniProtKB/TrEMBL
  ALKBH3 UniProtKB/TrEMBL
  Oxoglu/Fe-dep_dioxygenase UniProtKB/TrEMBL
NCBI Gene Alkbh3 ENTREZGENE
PANTHER ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ALKB HOMOLOG 3 UniProtKB/TrEMBL
  PTHR31212 UniProtKB/TrEMBL
Pfam 2OG-FeII_Oxy_2 UniProtKB/TrEMBL
PROSITE FE2OG_OXY UniProtKB/TrEMBL
Superfamily-SCOP Clavaminate synthase-like UniProtKB/TrEMBL
UniProt I3M775 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-04-21 Alkbh3  alkB homolog 3, alpha-ketoglutarate dependent dioxygenase  Alkbh3  alkB homolog 3, alpha-ketoglutaratedependent dioxygenase  Symbol and/or name change 5135510 APPROVED