U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

kmt2ca lysine (K)-specific methyltransferase 2Ca [ Danio rerio (zebrafish) ]

Gene ID: 560793, updated on 11-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
kmt2caprovided by ZNC
Official Full Name
lysine (K)-specific methyltransferase 2Caprovided by ZNC
Primary source
ZFIN:ZDB-GENE-080520-3
See related
Ensembl:ENSDARG00000079312 AllianceGenome:ZFIN:ZDB-GENE-080520-3
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
mll3a; si:ch211-244o18.1; si:ch211-244o18.2
Summary
Predicted to enable histone binding activity; histone methyltransferase activity (H3-K4 specific); and transcription coactivator activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromatin organization and methylation. Predicted to be located in nucleus. Predicted to be part of MLL3/4 complex. Human ortholog(s) of this gene implicated in Klatskin's tumor; Kleefstra syndrome 2; esophagus squamous cell carcinoma; and squamous cell carcinoma. Orthologous to human KMT2C (lysine methyltransferase 2C). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See kmt2ca in Genome Data Viewer
Location:
chromosome: 24
Exon count:
61
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 24 NC_007135.7 (7336866..7549578)
105 previous assembly GRCz10 (GCF_000002035.5) 24 NC_007135.6 (7307683..7520242)

Chromosome 24 - NC_007135.7Genomic Context describing neighboring genes Neighboring gene actin related protein 3B Neighboring gene X-ray repair complementing defective repair in Chinese hamster cells 2 Neighboring gene uncharacterized LOC560947 Neighboring gene UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 11 (GalNAc-T11)

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Genome-wide association study of kidney function decline in individuals of European descent. Gorski M, et al. Kidney Int, 2015 May. PMID 25493955, Free PMC Article
  2. The DEAD-box RNA helicase Ddx39ab is essential for myocyte and lens development in zebrafish. Zhang L, et al. Development, 2018 Apr 23. PMID 29636379
  3. Genome-wide survey and developmental expression mapping of zebrafish SET domain-containing genes. Sun XJ, et al. PLoS One, 2008 Jan 30. PMID 18231586, Free PMC Article
  4. The Kdm/Kmt gene families in the self-fertilizing mangrove rivulus fish, Kryptolebias marmoratus, suggest involvement of histone methylation machinery in development and reproduction. Fellous A, et al. Gene, 2019 Mar 1. PMID 30458291
  5. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables histone H3K4 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K4 monomethyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of MLL3/4 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
histone-lysine N-methyltransferase MLL3; histone-lysine N-methyltransferase 2C
Names
myeloid/lymphoid or mixed-lineage leukemia 3
myeloid/lymphoid or mixed-lineage leukemia 3a
XP_005162602.1
XP_005162603.1
XP_005162604.1
XP_005162605.1
XP_017209413.1
XP_017209414.1
XP_021325943.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007135.7 Reference GRCz11 Primary Assembly

    Range
    7336866..7549578
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005162545.4 → XP_005162602.1  histone-lysine N-methyltransferase 2C isoform X1

    UniProtKB/TrEMBL
    A0A8M2B9E0
    Conserved Domains (13) summary
    smart00398
    Location:1707 → 1760
    HMG; high mobility group
    smart00317
    Location:4819 → 4940
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:4942 → 4958
    PostSET; Cysteine-rich motif following a subset of SET domains
    COG2940
    Location:4820 → 4958
    SET; SET domain-containing protein (function unknown) [General function prediction only]
    cd15509
    Location:360 → 404
    PHD1_KMT2C_like; PHD finger 1 found in Histone-lysine N-methyltransferase 2C (KMT2C) and 2D (KMT2D)
    cd15513
    Location:1030 → 1076
    PHD5_KMT2C_like; PHD finger 5 found in Histone-lysine N-methyltransferase 2C (KMT2C) and PHD finger 4 found in KMT2D
    cd15594
    Location:406 → 451
    PHD2_KMT2C; PHD finger 2 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15596
    Location:973 → 1029
    PHD4_KMT2C; PHD finger 4 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15697
    Location:4440 → 4544
    ePHD2_KMT2C; Extended PHD finger 2 found in histone-lysine N-methyltransferase 2C (KMT2C)
    pfam04487
    Location:2586 → 2683
    CITED; CITED
    pfam05964
    Location:4599 → 4649
    FYRN; F/Y-rich N-terminus
    pfam05965
    Location:4656 → 4736
    FYRC; F/Y rich C-terminus
    cl22851
    Location:263 → 346
    PHD_SF; PHD finger superfamily

  2. XM_017353925.2 → XP_017209414.1  histone-lysine N-methyltransferase 2C isoform X3

    UniProtKB/TrEMBL
    A0A8M6YY65

  3. XM_017353924.2 → XP_017209413.1  histone-lysine N-methyltransferase 2C isoform X2

    UniProtKB/TrEMBL
    A0A8M6YWB8

  4. XM_005162547.4 → XP_005162604.1  histone-lysine N-methyltransferase 2C isoform X5

    UniProtKB/TrEMBL
    A0A8M2B9E8
    Related
    ENSDARP00000115827.2, ENSDART00000137010.4
    Conserved Domains (13) summary
    smart00398
    Location:1691 → 1744
    HMG; high mobility group
    smart00317
    Location:4803 → 4924
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:4926 → 4942
    PostSET; Cysteine-rich motif following a subset of SET domains
    COG2940
    Location:4804 → 4942
    SET; SET domain-containing protein (function unknown) [General function prediction only]
    cd15509
    Location:360 → 404
    PHD1_KMT2C_like; PHD finger 1 found in Histone-lysine N-methyltransferase 2C (KMT2C) and 2D (KMT2D)
    cd15513
    Location:1030 → 1076
    PHD5_KMT2C_like; PHD finger 5 found in Histone-lysine N-methyltransferase 2C (KMT2C) and PHD finger 4 found in KMT2D
    cd15594
    Location:406 → 451
    PHD2_KMT2C; PHD finger 2 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15596
    Location:973 → 1029
    PHD4_KMT2C; PHD finger 4 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15697
    Location:4424 → 4528
    ePHD2_KMT2C; Extended PHD finger 2 found in histone-lysine N-methyltransferase 2C (KMT2C)
    pfam04487
    Location:2570 → 2667
    CITED; CITED
    pfam05964
    Location:4583 → 4633
    FYRN; F/Y-rich N-terminus
    pfam05965
    Location:4640 → 4720
    FYRC; F/Y rich C-terminus
    cl22851
    Location:263 → 346
    PHD_SF; PHD finger superfamily

  5. XM_021470268.1 → XP_021325943.1  histone-lysine N-methyltransferase 2C isoform X7

    UniProtKB/TrEMBL
    A0A8M9PG96
    Conserved Domains (17) summary
    smart00398
    Location:1658 → 1711
    HMG; high mobility group
    smart00317
    Location:4770 → 4891
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:4893 → 4909
    PostSET; Cysteine-rich motif following a subset of SET domains
    cd15509
    Location:360 → 404
    PHD1_KMT2C_like; PHD finger 1 found in Histone-lysine N-methyltransferase 2C (KMT2C) and 2D (KMT2D)
    cd15513
    Location:1030 → 1076
    PHD5_KMT2C_like; PHD finger 5 found in Histone-lysine N-methyltransferase 2C (KMT2C) and PHD finger 4 found in KMT2D
    cd15594
    Location:406 → 451
    PHD2_KMT2C; PHD finger 2 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15596
    Location:973 → 1029
    PHD4_KMT2C; PHD finger 4 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15697
    Location:4391 → 4495
    ePHD2_KMT2C; Extended PHD finger 2 found in histone-lysine N-methyltransferase 2C (KMT2C)
    pfam07271
    Location:3397 → 3554
    Cytadhesin_P30; Cytadhesin P30/P32
    pfam04487
    Location:2537 → 2634
    CITED
    pfam05964
    Location:4549 → 4600
    FYRN; F/Y-rich N-terminus
    pfam05965
    Location:4607 → 4690
    FYRC; F/Y rich C-terminus
    pfam09606
    Location:3094 → 3352
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    cl22851
    Location:263 → 346
    PHD_SF; PHD finger superfamily
    cl25732
    Location:3143 → 3241
    SMC_N; RecF/RecN/SMC N terminal domain
    cl26464
    Location:1850 → 2305
    Atrophin-1; Atrophin-1 family
    cl28246
    Location:515 → 759
    DnaJ; DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]

  6. XM_005162548.4 → XP_005162605.1  histone-lysine N-methyltransferase 2C isoform X6

    UniProtKB/TrEMBL
    A0A8M2B9D3
    Conserved Domains (13) summary
    smart00398
    Location:1667 → 1720
    HMG; high mobility group
    smart00317
    Location:4779 → 4900
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:4902 → 4918
    PostSET; Cysteine-rich motif following a subset of SET domains
    COG2940
    Location:4780 → 4918
    SET; SET domain-containing protein (function unknown) [General function prediction only]
    cd15509
    Location:360 → 404
    PHD1_KMT2C_like; PHD finger 1 found in Histone-lysine N-methyltransferase 2C (KMT2C) and 2D (KMT2D)
    cd15513
    Location:990 → 1036
    PHD5_KMT2C_like; PHD finger 5 found in Histone-lysine N-methyltransferase 2C (KMT2C) and PHD finger 4 found in KMT2D
    cd15594
    Location:406 → 451
    PHD2_KMT2C; PHD finger 2 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15596
    Location:933 → 989
    PHD4_KMT2C; PHD finger 4 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15697
    Location:4400 → 4504
    ePHD2_KMT2C; Extended PHD finger 2 found in histone-lysine N-methyltransferase 2C (KMT2C)
    pfam04487
    Location:2546 → 2643
    CITED; CITED
    pfam05964
    Location:4559 → 4609
    FYRN; F/Y-rich N-terminus
    pfam05965
    Location:4616 → 4696
    FYRC; F/Y rich C-terminus
    cl22851
    Location:263 → 346
    PHD_SF; PHD finger superfamily

  7. XM_005162546.4 → XP_005162603.1  histone-lysine N-methyltransferase 2C isoform X4

    UniProtKB/TrEMBL
    A0A8M2B9Q2
    Conserved Domains (13) summary
    smart00398
    Location:1707 → 1760
    HMG; high mobility group
    smart00317
    Location:4815 → 4936
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:4938 → 4954
    PostSET; Cysteine-rich motif following a subset of SET domains
    COG2940
    Location:4747 → 4954
    SET; SET domain-containing protein (function unknown) [General function prediction only]
    cd15509
    Location:360 → 404
    PHD1_KMT2C_like; PHD finger 1 found in Histone-lysine N-methyltransferase 2C (KMT2C) and 2D (KMT2D)
    cd15513
    Location:1030 → 1076
    PHD5_KMT2C_like; PHD finger 5 found in Histone-lysine N-methyltransferase 2C (KMT2C) and PHD finger 4 found in KMT2D
    cd15594
    Location:406 → 451
    PHD2_KMT2C; PHD finger 2 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15596
    Location:973 → 1029
    PHD4_KMT2C; PHD finger 4 found in Histone-lysine N-methyltransferase 2C (KMT2C)
    cd15697
    Location:4440 → 4544
    ePHD2_KMT2C; Extended PHD finger 2 found in histone-lysine N-methyltransferase 2C (KMT2C)
    pfam04487
    Location:2586 → 2683
    CITED; CITED
    pfam05964
    Location:4599 → 4649
    FYRN; F/Y-rich N-terminus
    pfam05965
    Location:4656 → 4736
    FYRC; F/Y rich C-terminus
    cl22851
    Location:263 → 346
    PHD_SF; PHD finger superfamily

RNA

  1. XR_002456618.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases
Research Materials
Tools