ALKBH1

General Information

Gene Name       : ALKBH1
Gene ID             : ENSG00000100601.9
Essential Gene : No

Functions

Localization

Domains (AlphaFold: ALKBH1)


Antibody Validation

Expression Level in Cell lines

Cell Line Gene Name Ensembl ID Rep1 TPM Rep2 TPM Average TPM Experiment ID
Gm12878ALKBH1ENSG00000100601.914.5813.4214.00ENCSR000AEF
HepG2ALKBH1ENSG00000100601.98.3710.239.30ENCSR985KAT
K562ALKBH1ENSG00000100601.99.629.569.59ENCSR000AEO

Assays

2 Released experiments are available on ENCORE database.

Assay TypeExp_NameENCODE IDTarget labelBiosampleStatusLinked AntibodyControlsMethodNote
knockdown followed by RNA-seq ALKBH1-BGKcLV23-K562ENCSR278CLEALKBH1K562ReleasedENCSR877JEM   CRISPRKD% = 87.2,88.045683
knockdown followed by RNA-seq ALKBH1-BGHcLV24-HepG2ENCSR076LFCALKBH1HepG2ReleasedENCSR671FDZ   CRISPRKD% = 85.0,86.0






  eCLIP  

No eCLIP experiment available



  Antibody Validation  
  GeneName    Antibody_DCC_ID    Product_ID    Lot_ID    Phosphate    HepG2 Primary Validation    K562 Primary Validation    HepG2 Secondary Validation    K562 Secondary Validation  
ALKBH1ENCAB874JLVPA5-92844UK2881304Released, ENCODE4BGHcLV24-9, Released, ENCODE4BGKcLV23-13, Released, ENCODE4


  KD RNA-Seq  
  GeneName    Cell_Line    Method    Exp_ID    Control_ID    Sample_reps    Control_reps    KD%    Status    Project    Note  
ALKBH1K562CRISPRBGKcLV23-11,BGKcLV23-12BGKcLV23-1,BGKcLV23-263.5,67.2NotSatisfiedENCODE4
ALKBH1K562CRISPRENCSR278CLEENCSR877JEMALKBH1-BGKcLV23-13,ALKBH1-BGKcLV23-14NT-BGKcLV23-1,NT-BGKcLV23-287.2,88.045683ReleasedENCODE4
ALKBH1HepG2CRISPRENCSR076LFCENCSR671FDZALKBH1-BGHcLV24-9,ALKBH1-BGHcLV24-10NT-BGHcLV24-1,NT-BGHcLV24-285.0,86.0ReleasedENCODE4


  RNA Bind-n-Seqn  

No RBNS experiment available



  Localization Image in HepG2  

No Localization Information available













RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
ALKBH1Product_ID: PA5-92844
Lot_ID: UK2881304
Source: Thermo Fisher
Target Name: ALKBH1-human		 ALKBH1-HEPG2-CRISPR-PA5-92844.png<br>Caption: Western blot following CRISPR against ALKBH1 in HepG2 whole cell lysate using ALKBH1 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against ALKBH1. ALKBH1 protein appears as the green arrow, Tubulin serves as a control and appears in red arrow.
 ThermoFisher_PA5-92844_UK2881304_ALKBH1.png<br>Caption: IP-WB analysis of K562 whole cell lysate using the ALKBH1 specific antibody, PA5-92844. Lanes 1 and 2 are 2.5% of five million whole cell lysate input and 50% of IP enrichment, respectively, using a normal IgG antibody. Lane 3 is 50% of IP enrichment from five million whole cell lysate using the ALKBH1-specific antibody, PA5-92844. The same antibody was used to detect protein levels via Western blot. This antibody passes preliminary validation and will be further pursued for secondary validation. *NOTE* Protein sizes are taken from Genecards.org and are only estimates based on sequence. Actual protein size may differ based on protein characteristics and electrophoresis method used.
 ALKBH1-K562-CRISPR-PA5-92844.png<br>Caption: Western blot following CRISPR against ALKBH1 in K562 whole cell lysate using ALKBH1 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against ALKBH1. ALKBH1 protein appears as the green arrow, Tubulin serves as a control and appears in red arrow.








RNA Targets

  • eCLIP assay for ALKBH1 is not avaliable on ENCORE database.



Proteins bound to RNA
  • ALKBH1 RNA is bound by 3 proteins.  







eCLIP assay for ALKBH1 is not avaliable on ENCORE database.





3 proteins are bound to ALKBH1 RNA:

Chr Start End Strand Matched Area log2(fold change) -log(p-value) Cell Line Binding Protein Name
chr147817428578174363-5'-UTR,CDS,intron-Distal,intron-Proximal4.112903.07217HepG2NCBP2
chr147816116378161273-CDS,intron-Distal,intron-Proximal5.9063513.47728HepG2U2AF2
chr147816453678164603-intron-Distal3.935103.41738HepG2PTBP1
ChrStartEndStrandMatched Arealog2(fold change)-log(p-value)Cell LineBinding Protein Name




eCLIP assay for ALKBH1 is not avaliable on ENCORE database.



Diffrential Expression

  • The Knockdown/knockout assay for ALKBH1 is not available on ENCORE database.

  • 27 RBPs can affect the levels of ALKBH1.  








The Knockdown/knockout RNA-Seq assay for ALKBH1 is not available on ENCORE database.





27 RBPs can affect the gene expression of ALKBH1 :

Gene NameGene IDKDMeanCNMeanlog2(fold change) *-log(pval) **-log(padj) **Cell LineAffected by RBPBound by RBP
ALKBH1ENSG00000100601.5302.54700222.219800.445102.026901.50800HepG2BOP1
ALKBH1ENSG00000100601.5108.95240204.01420-0.905004.468103.61270HepG2CPSF6
ALKBH1ENSG00000100601.5482.70930353.741600.448402.338201.75810HepG2DDX3X
ALKBH1ENSG00000100601.5240.14570337.13310-0.489402.629201.83380HepG2EIF4G2
ALKBH1ENSG00000100601.5315.49520403.75720-0.355902.140801.59840HepG2ETF1
ALKBH1ENSG00000100601.5181.40280302.14360-0.736004.025703.23110HepG2G3BP1
ALKBH1ENSG00000100601.5194.43590320.69300-0.721904.091002.99990HepG2G3BP2
ALKBH1ENSG00000100601.5160.55030305.82060-0.929705.937604.94450HepG2HNRNPK
ALKBH1ENSG00000100601.5151.05350220.71160-0.547102.045001.49550HepG2HNRNPLL
ALKBH1ENSG00000100601.5174.82060337.69070-0.949807.724006.79550HepG2PUF60
ALKBH1ENSG00000100601.5401.52670270.995900.567102.865602.17930HepG2SF3A3
ALKBH1ENSG00000100601.5212.14680325.58600-0.618003.996703.30790HepG2SF3B4
ALKBH1ENSG00000100601.5507.67770381.156400.413403.133402.61210HepG2SRFBP1
ALKBH1ENSG00000100601.5253.42090330.93480-0.385002.081201.62020HepG2SSB
ALKBH1ENSG00000100601.5214.36940305.49160-0.511002.779702.21830HepG2TAF15
ALKBH1ENSG00000100601.5164.24390227.97650-0.473002.081001.63470HepG2TIAL1
ALKBH1ENSG00000100601.5409.70380228.306300.843505.264404.41360HepG2U2AF1
ALKBH1ENSG00000100601.5165.84410235.73620-0.507302.385101.75610HepG2ZC3H8
ALKBH1ENSG00000100601.5305.24390202.311100.593303.152101.88280K562AARS
ALKBH1ENSG00000100601.5756.21690446.529800.759907.110006.23960K562AQR
ALKBH1ENSG00000100601.5633.58290376.038100.752609.879408.73800K562DDX47
ALKBH1ENSG00000100601.5305.49330190.377300.682203.272901.87080K562EEF2
ALKBH1ENSG00000100601.5316.47670205.593500.622203.765602.81230K562EIF4A3
ALKBH1ENSG00000100601.5311.42690213.809100.542503.283302.63270K562FXR1
ALKBH1ENSG00000100601.5326.13900179.004600.865405.517504.45660K562PRPF8
ALKBH1ENSG00000100601.5320.39060182.346800.813004.660103.59800K562RPS19
ALKBH1ENSG00000100601.5405.45090223.108400.861707.471106.31810K562SRSF1
Gene NameGene IDKDMeanCNMeanlog2(fold change)-log(pval)-log(padj)Cell LineAffected by RBPBound by RBP

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".






The Knockdown/knockout RNA-Seq assay for ALKBH1 is not available on ENCORE database.





2 RBPs can affect the splicing of ALKBH1 :

Event TypeGene NameGene IDchrStrandExonStartExonEnd2ndExonStart2ndExonEndupstreamESupstreamEEdownstreamESdownstreamEEdPSIp-valueFDRis_includedCell LineAffected by RBPBound by RBP
SEALKBH1ENSG00000100601.5chr14-781610807816124378146222781463137817071178170855-0.153000.002990.03049excludedK562AQR
SEALKBH1ENSG00000100601.5chr14-781610807816124378146222781463137817071178170795-0.196000.003290.04500excludedK562PUS1

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".





The Knockdown/knockout RNA-Seq assay for ALKBH1 is not avaliable on ENCORE database.