Human Gene KMT2B (ENST00000420124.4_10) from GENCODE V47lift37
  Description: lysine methyltransferase 2B (from RefSeq NM_014727.3)
Gencode Transcript: ENST00000420124.4_10
Gencode Gene: ENSG00000272333.8_13
Transcript (Including UTRs)
   Position: hg19 chr19:36,208,905-36,229,779 Size: 20,875 Total Exon Count: 37 Strand: +
Coding Region
   Position: hg19 chr19:36,208,921-36,229,458 Size: 20,538 Coding Exon Count: 37 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:36,208,905-36,229,779)mRNA (may differ from genome)Protein (2715 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
MalacardsMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: MLL4_HUMAN
DESCRIPTION: RecName: Full=Histone-lysine N-methyltransferase MLL4; EC=2.1.1.43; AltName: Full=Lysine N-methyltransferase 2B; Short=KMT2B; AltName: Full=Myeloid/lymphoid or mixed-lineage leukemia protein 4; AltName: Full=Trithorax homolog 2; AltName: Full=WW domain-binding protein 7; Short=WBP-7;
FUNCTION: Histone methyltransferase. Methylates 'Lys-4' of histone H3. H3 'Lys-4' methylation represents a specific tag for epigenetic transcriptional activation. Plays a central role in beta-globin locus transcription regulation by being recruited by NFE2. Plays an important role in controlling bulk H3K4me during oocyte growth and preimplantation development. Required during the transcriptionally active period of oocyte growth for the establishment and/or maintenance of bulk H3K4 trimethylation (H3K4me3), global transcriptional silencing that preceeds resumption of meiosis, oocyte survival and normal zygotic genome activation.
CATALYTIC ACTIVITY: S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].
SUBUNIT: Component of the menin-associated histone methyltransferase complex, at least composed of MLL4/WBP7, ASH2L, RBBP5, WDR5, DPY30, MEN1; the complex interacts with POLR2A and POLR2B via MEN1. Interacts with NFE2. Interacts with KDM6B.
INTERACTION: P16333:NCK1; NbExp=2; IntAct=EBI-765774, EBI-389883;
SUBCELLULAR LOCATION: Nucleus (By similarity).
TISSUE SPECIFICITY: Widely expressed. Highest levels in testis. Also found in brain, bone marrow, heart, muscle, kidney, placenta, spleen, thymus, prostate, ovary, intestine, colon, peripheral blood lymphocytes and pancreas. Often amplified in pancreatic carcinomas.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR (By similarity).
SIMILARITY: Belongs to the histone-lysine methyltransferase family. TRX/MLL subfamily.
SIMILARITY: Contains 3 A.T hook DNA-binding domains.
SIMILARITY: Contains 1 CXXC-type zinc finger.
SIMILARITY: Contains 1 FYR C-terminal domain.
SIMILARITY: Contains 1 FYR N-terminal domain.
SIMILARITY: Contains 3 PHD-type zinc fingers.
SIMILARITY: Contains 1 post-SET domain.
SIMILARITY: Contains 1 SET domain.
CAUTION: This protein was first named MLL2 by PubMed:10637508 and PubMed:10409430. MLL2 corresponds to another protein located on chromosome 12 (see AC O14686). Thus, MLL4 is often referred to as MLL2 and vice versa in the literature.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: KMT2B
Diseases sorted by gene-association score: dystonia 28, childhood-onset* (900), spindle cell sarcoma (12), corneal staphyloma (11), myeloid/lymphoid or mixed lineage leukemia (10), early-onset generalized dystonia (8), kabuki syndrome 1 (7), agammaglobulinemia and isolated hormone deficiency (6)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 34.80 RPKM in Testis
Total median expression: 622.91 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR 0.00160.000 Picture PostScript Text
3' UTR -109.10321-0.340 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR017956 - AT_hook_DNA-bd_motif
IPR003889 - FYrich_C
IPR003888 - FYrich_N
IPR015722 - Histone-lysine_MeTfrase
IPR016569 - MeTrfase_trithorax
IPR003616 - Post-SET_dom
IPR001214 - SET_dom
IPR002857 - Znf_CXXC
IPR011011 - Znf_FYVE_PHD
IPR001965 - Znf_PHD
IPR019787 - Znf_PHD-finger
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF00628 - PHD-finger
PF00856 - SET domain
PF02008 - CXXC zinc finger domain
PF05964 - F/Y-rich N-terminus
PF05965 - F/Y rich C-terminus
PF13771 - PHD-like zinc-binding domain
PF13832 - PHD-zinc-finger like domain

SCOP Domains:
47370 - Bromodomain
82199 - SET domain
57903 - FYVE/PHD zinc finger

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3UVM - X-ray MuPIT 4ERZ - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9UMN6
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0008168 methyltransferase activity
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0018024 histone-lysine N-methyltransferase activity
GO:0042800 histone methyltransferase activity (H3-K4 specific)
GO:0046872 metal ion binding

Biological Process:
GO:0001541 ovarian follicle development
GO:0006325 chromatin organization
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0007613 memory
GO:0009994 oocyte differentiation
GO:0016458 gene silencing
GO:0030728 ovulation
GO:0032259 methylation
GO:0034968 histone lysine methylation
GO:0045652 regulation of megakaryocyte differentiation
GO:0048096 chromatin-mediated maintenance of transcription
GO:0051568 histone H3-K4 methylation
GO:0051569 regulation of histone H3-K4 methylation
GO:0080182 histone H3-K4 trimethylation

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0035097 histone methyltransferase complex


-  Descriptions from all associated GenBank mRNAs
  LF207610 - JP 2014500723-A/15113: Polycomb-Associated Non-Coding RNAs.
AJ007041 - Homo sapiens mRNA for trithorax homologue 2.
AF186605 - Homo sapiens MLL2 protein mRNA, partial cds.
LF367416 - JP 2014500723-A/174919: Polycomb-Associated Non-Coding RNAs.
AB002302 - Homo sapiens mRNA for KIAA0304 protein, partial cds.
LF367415 - JP 2014500723-A/174918: Polycomb-Associated Non-Coding RNAs.
LF367413 - JP 2014500723-A/174916: Polycomb-Associated Non-Coding RNAs.
LF367412 - JP 2014500723-A/174915: Polycomb-Associated Non-Coding RNAs.
AF105279 - Homo sapiens myeloid/lymphoid leukemia 2 (MLL2) mRNA, alternatively spliced, partial cds.
LF367411 - JP 2014500723-A/174914: Polycomb-Associated Non-Coding RNAs.
AF104918 - Homo sapiens myeloid/lymphoid leukemia 2 (MLL2) mRNA, partial cds.
LF367410 - JP 2014500723-A/174913: Polycomb-Associated Non-Coding RNAs.
LF367409 - JP 2014500723-A/174912: Polycomb-Associated Non-Coding RNAs.
LF367407 - JP 2014500723-A/174910: Polycomb-Associated Non-Coding RNAs.
LF367406 - JP 2014500723-A/174909: Polycomb-Associated Non-Coding RNAs.
LF367405 - JP 2014500723-A/174908: Polycomb-Associated Non-Coding RNAs.
LF367404 - JP 2014500723-A/174907: Polycomb-Associated Non-Coding RNAs.
BC009337 - Homo sapiens myeloid/lymphoid or mixed-lineage leukemia 4, mRNA (cDNA clone IMAGE:4128272), partial cds.
LF367403 - JP 2014500723-A/174906: Polycomb-Associated Non-Coding RNAs.
AK303252 - Homo sapiens cDNA FLJ61754 complete cds.
BC026861 - Homo sapiens myeloid/lymphoid or mixed-lineage leukemia 4, mRNA (cDNA clone IMAGE:3857450), with apparent retained intron.
AF105280 - Homo sapiens myeloid/lymphoid leukemia 2 (MLL2) mRNA, partial cds.
BC007353 - Homo sapiens myeloid/lymphoid or mixed-lineage leukemia 4, mRNA (cDNA clone IMAGE:3616127), partial cds.
LF367400 - JP 2014500723-A/174903: Polycomb-Associated Non-Coding RNAs.
LF367399 - JP 2014500723-A/174902: Polycomb-Associated Non-Coding RNAs.
DQ600377 - Homo sapiens piRNA piR-38443, complete sequence.
LF367398 - JP 2014500723-A/174901: Polycomb-Associated Non-Coding RNAs.
JD137721 - Sequence 118745 from Patent EP1572962.
JD126672 - Sequence 107696 from Patent EP1572962.
JD151086 - Sequence 132110 from Patent EP1572962.
JD145854 - Sequence 126878 from Patent EP1572962.
JD397382 - Sequence 378406 from Patent EP1572962.
JD252295 - Sequence 233319 from Patent EP1572962.
JD413112 - Sequence 394136 from Patent EP1572962.
JD207459 - Sequence 188483 from Patent EP1572962.
JD277892 - Sequence 258916 from Patent EP1572962.
JD535949 - Sequence 516973 from Patent EP1572962.
JD192684 - Sequence 173708 from Patent EP1572962.
JD392817 - Sequence 373841 from Patent EP1572962.
JD426335 - Sequence 407359 from Patent EP1572962.
JD245060 - Sequence 226084 from Patent EP1572962.
MA602993 - JP 2018138019-A/174919: Polycomb-Associated Non-Coding RNAs.
MA602992 - JP 2018138019-A/174918: Polycomb-Associated Non-Coding RNAs.
MA602990 - JP 2018138019-A/174916: Polycomb-Associated Non-Coding RNAs.
MA602989 - JP 2018138019-A/174915: Polycomb-Associated Non-Coding RNAs.
MA602988 - JP 2018138019-A/174914: Polycomb-Associated Non-Coding RNAs.
MA602987 - JP 2018138019-A/174913: Polycomb-Associated Non-Coding RNAs.
MA602986 - JP 2018138019-A/174912: Polycomb-Associated Non-Coding RNAs.
MA602984 - JP 2018138019-A/174910: Polycomb-Associated Non-Coding RNAs.
MA602983 - JP 2018138019-A/174909: Polycomb-Associated Non-Coding RNAs.
MA602982 - JP 2018138019-A/174908: Polycomb-Associated Non-Coding RNAs.
MA602981 - JP 2018138019-A/174907: Polycomb-Associated Non-Coding RNAs.
MA602980 - JP 2018138019-A/174906: Polycomb-Associated Non-Coding RNAs.
MA602977 - JP 2018138019-A/174903: Polycomb-Associated Non-Coding RNAs.
MA602976 - JP 2018138019-A/174902: Polycomb-Associated Non-Coding RNAs.
MA602975 - JP 2018138019-A/174901: Polycomb-Associated Non-Coding RNAs.
MA443187 - JP 2018138019-A/15113: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UMN6 (Reactome details) participates in the following event(s):

R-HSA-8935740 RUNX1 and GATA1 bind the promoter of the ITGA2B gene
R-HSA-8936616 RUNX1 and GATA1 bind the promoter of the GP1BA gene
R-HSA-8936979 RUNX1 and GATA1 bind the promoter of the THBS1 gene
R-HSA-8937037 RUNX1 and GATA1 bind the promoter of the MIR27A gene
R-HSA-8936481 Core MLL complex methylates H3K4Me2-Nucleosome at the ITGA2B gene promoter
R-HSA-8936621 Core MLL complex methylates H3K4Me2-Nucleosome at the GP1BA gene promoter
R-HSA-8937016 Core MLL complex methylates H3K4Me2-Nucleosome at the THBS1 gene promoter
R-HSA-8937050 Core MLL complex methylates H3K4Me2-Nucleosome at the MIR27A gene promoter
R-HSA-5159245 SETD3, SETD7 (KMT7), WHSC1L1 (KMT3F), Core MLL complex methylate lysine-5 of histone H3 (H3K4)
R-HSA-5244692 Core MLL complex, SMYD3, PRDM9 methylate dimethyl-lysine-5 of histone H3 (H3K4)
R-HSA-5637686 WHSC1L1 (KMT3F), Core MLL complex, SMYD3 (KMT3E) methylate methyl-lysine-5 of histone H3 (H3K4)
R-HSA-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-HSA-8878171 Transcriptional regulation by RUNX1
R-HSA-3214841 PKMTs methylate histone lysines
R-HSA-212436 Generic Transcription Pathway
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-4839726 Chromatin organization
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000420124.1, ENST00000420124.2, ENST00000420124.3, HRX2, KIAA0304, KMT2B_HUMAN, MLL2, MLL4, NM_014727, O15022, O95836, Q96GP2, Q96IP3, Q9UK25, Q9UMN6, Q9Y668, Q9Y669, TRX2, uc319ppq.1, uc319ppq.2, WBP7
UCSC ID: ENST00000420124.4_10
RefSeq Accession: NM_014727.3
Protein: Q9UMN6 (aka MLL4_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene KMT2B:
kmt2b-dystonia (KMT2B-Related Dystonia)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.