Gene: Scn3a ENSMUSG00000057182

Description

sodium channel, voltage-gated, type III, alpha [Source:MGI Symbol;Acc:MGI:98249]

Gene Synonyms

LOC381367, Nav1.3

Location

Chromosome 2: 65,288,607-65,397,971 reverse strand.

GRCm39:CM000995.3

About this gene

This gene has 7 transcripts (splice variants), 131 orthologues, 26 paralogues and is associated with 5 phenotypes.

Transcripts

Show transcript tableHide transcript table

Transcript ID	Name	bp	Protein	Translation ID	Biotype	CCDS	UniProt Match	Flags
ENSMUST00000100069.9	Scn3a-201	8550	1947aa	ENSMUSP00000097647.3	Gene/transcipt that contains an open reading frame (ORF).Protein coding	CCDS50596	A2ASI5-1	A single transcript chosen for a gene which is the most conserved, most highly expressed, has the longest coding sequence and is represented in other key resources, such as NCBI and UniProt. This is defined in detail on http://www.ensembl.org/info/genome/genebuild/canonical.htmlEnsembl Canonical, GENCODE Primary represents a minimal set that contains MANE Select, MANE Plus Clinical and Ensembl Canonical transcripts and transcripts containing any conserved exons and common alternative splicing events (including exons skips) that are absent from the MANE and Ensembl Canonical transcripts for protein-coding genes. Other biotypes will have the GENCODE Primary flag added to the Ensembl Canonical transcript and for lncRNA genes only this will be the transcripts with the longest genomic span.GENCODE Primary, A subset of the GENCODE transcript set, containing only 5' and 3' complete transcripts at protein-coding genes.GENCODE Basic, APPRIS P1: Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods to identify the most functionally important transcript(s) of a gene. APPRIS P1, TSL 5: A transcript where no single transcript supports the model structure. The Transcript Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users, based on the type and quality of the alignments used to annotate the transcript. TSL:5,
ENSMUST00000238483.2	Scn3a-206	2978	880aa	ENSMUSP00000158593.2	Gene/transcipt that contains an open reading frame (ORF).Protein coding		A0A571BFW3	3' truncation in transcript evidence prevents annotation of the end of the CDS.CDS 3' incomplete,
ENSMUST00000238417.2	Scn3a-205	1284	428aa	ENSMUSP00000158693.2	Gene/transcipt that contains an open reading frame (ORF).Protein coding		A0A571BG54	5' and 3' truncations in transcript evidence prevent annotation of the start and the end of the CDS.CDS 5' and 3' incomplete,
ENSMUST00000126837.2	Scn3a-202	365	122aa	ENSMUSP00000115321.2	Gene/transcipt that contains an open reading frame (ORF).Protein coding		F6U9Y2	TSL 5: A transcript where no single transcript supports the model structure. The Transcript Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users, based on the type and quality of the alignments used to annotate the transcript. TSL:5, 5' and 3' truncations in transcript evidence prevent annotation of the start and the end of the CDS.CDS 5' and 3' incomplete,
ENSMUST00000238512.2	Scn3a-207	1596	328aa	ENSMUSP00000158639.2	Nonsense mediated decay		A0A571BEB6	5' truncation in transcript evidence prevents annotation of the start of the CDS.CDS 5' incomplete,
ENSMUST00000238409.2	Scn3a-204	597	137aa	ENSMUSP00000158784.2	Nonsense mediated decay		A9JQD4	5' truncation in transcript evidence prevents annotation of the start of the CDS.CDS 5' incomplete,
ENSMUST00000155838.2	Scn3a-203	3502	No protein	-	Alternatively spliced transcript of a protein coding gene for which we cannot define a CDS.Protein coding CDS not defined		-	TSL 2: A transcript where the best supporting mRNA is flagged as suspect or the support is from multiple ESTs The Transcript Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users, based on the type and quality of the alignments used to annotate the transcript. TSL:2,