GgaINT0021018 @ galGal4
Intron Retention
Gene
ENSGALG00000005400 | CACNA2D3
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 3 [Source:HGNC Symbol;Acc:HGNC:15460]
Coordinates
chr12:7631888-7632273:+
Coord C1 exon
chr12:7631888-7631959
Coord A exon
chr12:7631960-7632211
Coord C2 exon
chr12:7632212-7632273
Length
252 bp
Sequences
Splice sites
5' ss Seq
GGGGTAATG
5' ss Score
4.85
3' ss Seq
CTTTCTTGTTCCGAATCTAGAAA
3' ss Score
7.36
Exon sequences
Seq C1 exon
CTTCGAAATGCAATGGTGAATCGTAAAACAGGAAAATTCTCCATGGAAGTGAAGAAAACAGTGGACAAAGGG
Seq A exon
GTAATGCCTGAAATATCCTTCCGACTAGTTATAAAGCAAGCAGGTTTTTTTTTGTCTGTTTTGTTTTTTTAATTTTTGCAGCTTTCAAGATAGATTACTATAAACATTATTCACCGTGGTGTATTTTTTCACTCCCTGAATGTATACATTGCTTGTAATTTTTATCACTGACTAACTGCTTGATTTTTTTTATACTTACGGCAAACTAACTGTTTTCCCCCTTCCTTTCTGACTTTCTTGTTCCGAATCTAG
Seq C2 exon
AAACGGGTATTGGTGATGACAAATGACTACTATTATACAGACATCAAGGGTACTCCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005400:ENSGALT00000008674:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGAAATGCAATGGTGAATCGT
R:
CTGAATGGAGTACCCTTGATGTCTG
Band lengths:
132-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]