setdb1.L SET domain bifurcated 1 L homeolog [Xenopus laevis (African clawed frog)] - Gene

Summary

Official Symbol: setdb1.L
Official Full Name: SET domain bifurcated 1 L homeolog
Primary source: Xenbase:XB-GENE-866480
Locus tag: XELAEV_18040344mg
See related: EnsemblRapid:ENSXLAG00005033794 AllianceGenome:Xenbase:XB-GENE-866480
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus laevis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as: setdb1
Summary: Predicted to enable promoter-specific chromatin binding activity. Predicted to act upstream of or within DNA methylation-dependent constitutive heterochromatin formation. Predicted to be located in chromosome and nucleus. Is expressed in ectoderm; nervous system; urinary system; and visual system. Human ortholog(s) of this gene implicated in autistic disorder and lung cancer. Orthologous to human SETDB1 (SET domain bifurcated histone lysine methyltransferase 1). [provided by Alliance of Genome Resources, Jan 2025]
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Genomic context

Location:: chromosome: 8L

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	8L	NC_054385.1 (117674325..117717910)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	8L	NC_030738.1 (102835874..102879858)

Chromosome 8L - NC_054385.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables histone H3K9 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K9 monomethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K9me2 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone methyltransferase 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 promoter-specific chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA methylation-dependent constitutive heterochromatin formation	ISS Inferred from Sequence or Structural Similarity more info
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

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: histone-lysine N-methyltransferase SETDB1

NP_001085076.2

EC 2.1.1.366

XP_041427929.1

EC 2.1.1.366

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001091607.1 → NP_001085076.2 histone-lysine N-methyltransferase SETDB1

Status: PROVISIONAL

Source sequence(s)

BC072374

UniProtKB/Swiss-Prot

Q6INA9

Related

ENSXLAP00005101193.1, ENSXLAT00005103167.1

Conserved Domains (6) summary

smart00391
Location:629 → 704

MBD; Methyl-CpG binding domain

smart00333
Location:348 → 400

TUDOR; Tudor domain

smart00317
Location:1190 → 1252

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam05033
Location:714 → 827

Pre-SET; Pre-SET motif

pfam14797
Location:920 → 1039

SEEEED; Serine-rich region of AP3B1, clathrin-adaptor complex

cl02573
Location:258 → 316

TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

NC_054385.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

117674325..117717910

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_041571995.1 → XP_041427929.1 histone-lysine N-methyltransferase SETDB1 isoform X1

UniProtKB/TrEMBL

A0A8J1LFX8

Conserved Domains (2) summary

smart00333
Location:348 → 400

TUDOR; Tudor domain

cl02573
Location:258 → 316

Tudor_SF; Tudor domain superfamily