Mouse Gene Smyd1 (ENSMUST00000074301.9) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
Description: Mus musculus SET and MYND domain containing 1 (Smyd1), transcript variant 1, mRNA. (from RefSeq NM_001160127)
Gencode Transcript: ENSMUST00000074301.9
Gencode Gene: ENSMUSG00000055027.17
Transcript (Including UTRs)
Position: mm10 chr6:71,213,940-71,262,281 Size: 48,342 Total Exon Count: 10 Strand: -
Coding Region
Position: mm10 chr6:71,215,751-71,262,204 Size: 46,454 Coding Exon Count: 10
Data last updated at UCSC: 2019-09-19
Sequence and Links to Tools and Databases
Comments and Description Text from UniProtKB
ID: SMYD1_MOUSE
DESCRIPTION: RecName: Full=SET and MYND domain-containing protein 1; AltName: Full=CD8b-opposite; AltName: Full=Zinc finger protein BOP; Short=m-BOP;
FUNCTION: Acts as a transcriptional repressor. Essential for cardiomyocyte differentiation and cardiac morphogenesis.SUBUNIT: Interacts with HDAC1, HDAC2 and HDAC3.SUBCELLULAR LOCATION: Cytoplasm. Nucleus.TISSUE SPECIFICITY: Expressed in cardiac and skeletal muscle, lymphocytes and thymus.SIMILARITY: Contains 1 MYND-type zinc finger.SIMILARITY: Contains 1 SET domain.SEQUENCE CAUTION: Sequence=AAC53021.2; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAC53022.2; Type=Erroneous initiation; Note=Translation N-terminally extended;
Primer design for this transcript
Comparative Toxicogenomics Database (CTD)
mRNA Secondary Structure of 3' and 5' UTRs
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 IPR001214 - SET_dom
IPR002893 - Znf_MYND
Pfam Domains: PF00856 - SET domain
PF01753 - MYND finger
SCOP Domains: 48452 - TPR-like
82199 - SET domain
144232 - HIT/MYND zinc finger-like
Protein Data Bank (PDB) 3-D Structure
ModBase Predicted Comparative 3D Structure on P97443
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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.
Gene Ontology (GO) Annotations with Structured Vocabulary
Descriptions from all associated GenBank mRNAs
U76371 - Mus musculus t-BOP (Bop) mRNA, complete cds.BC076601 - Mus musculus SET and MYND domain containing 1, mRNA (cDNA clone MGC:100109 IMAGE:30609878), complete cds.AK142252 - Mus musculus 13 days embryo heart cDNA, RIKEN full-length enriched library, clone:D330022G08 product:SET and MYND domain containing 1, full insert sequence.AK142153 - Mus musculus 13 days embryo heart cDNA, RIKEN full-length enriched library, clone:D330002H11 product:SET and MYND domain containing 1, full insert sequence.AK076266 - Mus musculus 0 day neonate skin cDNA, RIKEN full-length enriched library, clone:4632404M21 product:ZINC-FINGER PROTEIN BOP, full insert sequence.U76373 - Mus musculus skm-BOP1 (Bop) mRNA, complete cds.U76374 - Mus musculus skm-BOP2 (Bop) mRNA, complete cds.AK027936 - Mus musculus 18-day embryo whole body cDNA, RIKEN full-length enriched library, clone:1110025H03 product:hypothetical protein, full insert sequence.
Other Names for This Gene
Alternate Gene Symbols: Bop, NM_001160127, P97442, P97443, P97444, Q6DFW7, SMYD1_MOUSE, uc009cgj.1, uc009cgj.2UCSC ID: uc009cgj.2RefSeq Accession: NM_001160127
Protein: P97443
(aka SMYD1_MOUSE or SMY1_MOUSE)
CCDS: CCDS20227.2 , CCDS51805.1
Gene Model Information
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Methods, Credits, and Use Restrictions
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for details on how this gene model was made and data restrictions if any.