Smyd4 SET and MYND domain containing 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smyd4provided by RGD
Official Full Name: SET and MYND domain containing 4provided by RGD
Primary source: RGD:1307369
See related: Ensembl:ENSRNOG00000026783 AllianceGenome:RGD:1307369
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable methyltransferase activity. Predicted to be involved in heart development. Predicted to be located in cytoplasm and nucleus. Orthologous to human SMYD4 (SET and MYND domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 42.5), Adrenal (RPKM 34.7) and 9 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 10q24

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (60698376..60744693)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (60200067..60246387)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (62191669..62237939)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

D10Rat238 (e-PCR), detects polymorphism
- UniSTS:226348

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables histone deacetylase binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in heart development	IBA Inferred from Biological aspect of Ancestor more info
involved_in heart development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: SET and MYND domain-containing protein 4

NP_001099280.1

EC 2.1.1.-

XP_063124747.1

EC 2.1.1.-

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001105810.1 → NP_001099280.1 SET and MYND domain-containing protein 4

See identical proteins and their annotated locations for NP_001099280.1

Status: PROVISIONAL

Source sequence(s)

CH473948

UniProtKB/TrEMBL

A6HGQ1, D4AEC7

Related

ENSRNOP00000029945.4, ENSRNOT00000029866.6

Conserved Domains (5) summary

sd00006
Location:68 → 96

TPR; TPR repeat [structural motif]

pfam00856
Location:526 → 572

SET; SET domain

pfam01753
Location:296 → 335

zf-MYND; MYND finger

pfam13414
Location:68 → 132

TPR_11; TPR repeat

pfam13424
Location:692 → 748

TPR_12; Tetratricopeptide repeat