DreINT0040052 @ danRer10
Intron Retention
Gene
ENSDARG00000078760 | cacna2d3
Description
calcium channel, voltage dependent, alpha2/delta subunit 3 [Source:ZFIN;Acc:ZDB-GENE-030616-133]
Coordinates
chr11:36429483-36429941:-
Coord C1 exon
chr11:36429829-36429941
Coord A exon
chr11:36429566-36429828
Coord C2 exon
chr11:36429483-36429565
Length
263 bp
Sequences
Splice sites
5' ss Seq
TTTATATCC
5' ss Score
-14.76
3' ss Seq
AATCCTTGACCTCTGAGCACATA
3' ss Score
-4.74
Exon sequences
Seq C1 exon
GACATTTGTGATTCAGCAGATTCCCAGCAGTAACCTGTTTATGGTGGTGGTTGAGAATAAATGTGACTGTGGCTCTGCTCTTCCAGTTACCATGGAGCCCATTGAGATCATTT
Seq A exon
ATATCCTTTAATAATTTGACTAAAGAGCTGCTTGTTTCTGTTTGAATCCATGAATCTGTCTGTCTTATACCAAACTGTATGTTTTGTAAGAAAGCTTAAAGGACCATACCCCAAACATGATGTATTATACAACAAACTACAAATGAGAATGTACAATTCAAATGAATTAGCCACTTATTTGCCAAAATGTAAAATAGTATCATATTGATTGGCCTACAGTTGTGTTGGTGTTAGTATGATTAAAATCCTTGACCTCTGAGCAC
Seq C2 exon
ATAATGAGTCACTGAAGTGTGACAGATTGAAGTTTCAGAAGGATCGCAGACGACCACAGTCCTGCCATCCATTTCATCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078760:ENSDART00000002055:36
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=0.071
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATTTGTGATTCAGCAGATTCCC
R:
CTCTGGATGAAATGGATGGCAGG
Band lengths:
196-459
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]