ALKBH4 (alkB homolog 4, lysine demethylase) - Rat Genome Database

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Gene: ALKBH4 (alkB homolog 4, lysine demethylase) Sus scrofa
Analyze
Symbol: ALKBH4
Name: alkB homolog 4, lysine demethylase
RGD ID: 14168709
Description: ENCODES a protein that exhibits 2-oxoglutarate-dependent dioxygenase activity (ortholog); INVOLVED IN positive regulation of gene expression, epigenetic (ortholog); ASSOCIATED WITH genetic disease (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN contractile ring (inferred); midbody (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: alkB, alkylation repair homolog 4; alpha-ketoglutarate-dependent dioxygenase alkB homolog 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl39,798,641 - 9,806,215 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.139,795,993 - 9,806,230 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.239,705,924 - 9,713,496 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
contractile ring  (IBA,IEA)
midbody  (IBA,IEA)

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:30032202  


Genomics

Comparative Map Data
ALKBH4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl39,798,641 - 9,806,215 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.139,795,993 - 9,806,230 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.239,705,924 - 9,713,496 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ALKBH4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387102,456,238 - 102,464,863 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7102,456,238 - 102,464,863 (-)EnsemblGRCh38hg38GRCh38
GRCh377102,096,685 - 102,105,310 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367101,883,690 - 101,892,293 (-)NCBINCBI36Build 36hg18NCBI36
Celera797,108,971 - 97,117,656 (-)NCBICelera
Cytogenetic Map7q22.1NCBI
HuRef796,686,935 - 96,695,574 (-)NCBIHuRef
CHM1_17102,026,702 - 102,035,362 (-)NCBICHM1_1
T2T-CHM13v2.07103,773,867 - 103,782,492 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27101,456,968 - 101,465,622 (-)NCBI
Alkbh4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395136,164,999 - 136,170,654 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5136,165,000 - 136,170,469 (+)EnsemblGRCm39 Ensembl
GRCm385136,136,145 - 136,141,800 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5136,136,146 - 136,141,615 (+)EnsemblGRCm38mm10GRCm38
MGSCv375136,614,651 - 136,617,485 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365136,420,772 - 136,426,430 (+)NCBIMGSCv36mm8
Celera5133,159,129 - 133,161,963 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map575.82NCBI
Alkbh4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81226,160,643 - 26,166,560 (-)NCBIGRCr8
mRatBN7.21220,524,030 - 20,529,947 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1220,524,030 - 20,529,947 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1221,664,007 - 21,669,932 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01222,276,711 - 22,282,636 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01221,341,901 - 21,347,814 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01223,568,204 - 23,574,133 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1223,568,094 - 23,574,125 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01225,568,554 - 25,574,483 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41221,639,400 - 21,645,317 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11221,630,562 - 21,635,583 (-)NCBI
Celera1222,292,412 - 22,298,329 (-)NCBICelera
Cytogenetic Map12q12NCBI
Alkbh4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545615,158,363 - 15,167,318 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545615,158,380 - 15,167,318 (+)NCBIChiLan1.0ChiLan1.0
ALKBH4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26120,470,675 - 120,478,721 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17168,727,367 - 168,743,349 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0794,596,641 - 94,605,369 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ALKBH4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.167,717,240 - 7,723,364 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl67,717,282 - 7,723,048 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha69,412,262 - 9,418,383 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.067,537,419 - 7,543,537 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl67,537,458 - 7,543,534 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.167,505,923 - 7,512,043 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.067,468,991 - 7,475,108 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.067,632,708 - 7,638,829 (+)NCBIUU_Cfam_GSD_1.0
Alkbh4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344132,147,508 - 132,153,154 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365431,883,321 - 1,889,155 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365431,883,353 - 1,889,159 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ALKBH4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12810,756,249 - 10,765,912 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2810,756,377 - 10,765,026 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660705,642,103 - 5,652,106 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Alkbh4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474015,181,370 - 15,188,230 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474015,181,241 - 15,188,230 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in ALKBH4
171 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 9 4 3 5 2 22 2 3 3
Below cutoff 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000022336   ⟹   ENSSSCP00000023807
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl39,798,641 - 9,806,215 (-)Ensembl
RefSeq Acc Id: XM_003480995   ⟹   XP_003481043
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.139,795,993 - 9,806,230 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_003481043   ⟸   XM_003480995
- UniProtKB: F1RKF4 (UniProtKB/TrEMBL),   A0A8D0YQ23 (UniProtKB/TrEMBL),   A0A8D0ITN6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000023807   ⟸   ENSSSCT00000022336


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000029300 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005017598 UniProtKB/TrEMBL
  ENSSSCG00030070205 UniProtKB/TrEMBL
  ENSSSCG00035008544 UniProtKB/TrEMBL
  ENSSSCG00045036005 UniProtKB/TrEMBL
  ENSSSCG00050077669 UniProtKB/TrEMBL
  ENSSSCG00055003616 UniProtKB/TrEMBL
  ENSSSCG00060032377 UniProtKB/TrEMBL
  ENSSSCG00065048661 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000022336 ENTREZGENE
  ENSSSCT00000022336.4 UniProtKB/TrEMBL
  ENSSSCT00005027792.1 UniProtKB/TrEMBL
  ENSSSCT00030098172.1 UniProtKB/TrEMBL
  ENSSSCT00035010672.1 UniProtKB/TrEMBL
  ENSSSCT00045061820.1 UniProtKB/TrEMBL
  ENSSSCT00050106925.1 UniProtKB/TrEMBL
  ENSSSCT00055007091.1 UniProtKB/TrEMBL
  ENSSSCT00060043832.1 UniProtKB/TrEMBL
  ENSSSCT00065066560.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.590 UniProtKB/TrEMBL
InterPro AlkB-like_sf UniProtKB/TrEMBL
  ALKBH4 UniProtKB/TrEMBL
KEGG Report ssc:100520070 UniProtKB/TrEMBL
NCBI Gene ALKBH4 ENTREZGENE
PANTHER ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ALKB HOMOLOG 4 UniProtKB/TrEMBL
  PTHR12463 UniProtKB/TrEMBL
Superfamily-SCOP Clavaminate synthase-like UniProtKB/TrEMBL
UniProt A0A8D0ITN6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0YQ23 ENTREZGENE, UniProtKB/TrEMBL
  F1RKF4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:85259 ENTREZGENE