DreINT0040040 @ danRer10
Intron Retention
Gene
ENSDARG00000078760 | cacna2d3
Description
calcium channel, voltage dependent, alpha2/delta subunit 3 [Source:ZFIN;Acc:ZDB-GENE-030616-133]
Coordinates
chr11:36446404-36446734:-
Coord C1 exon
chr11:36446639-36446734
Coord A exon
chr11:36446526-36446638
Coord C2 exon
chr11:36446404-36446525
Length
113 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
GTGTTTGTGTATGACTGCAGAGA
3' ss Score
6.28
Exon sequences
Seq C1 exon
GAACTCAGATAAAGGGGTTGAGATTGCTTTTCTCGGCACCCGGACTGGCCTTTCACGTACCAACTTGTTTGTAGTTCCTGAGCAACTGACCAATCG
Seq A exon
GTGAGCTGTATTGATAATGCCTGACTAATGACAAATTCTGATCCCATTGCACTGGTTGAATAAAATGTCTGTTAATGATGAAATGAACTATCAGTGTTTGTGTATGACTGCAG
Seq C2 exon
AGATTTCCTCACTGCTGAAGATAAGGAGGGCGTCTTTAACGCTGATCACTTTCCTCTGTGGTATAAAAGAGCAGCAGAGCAGGTGCCCGGCACATTTGTGTACTCCATTCCCTTCAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078760:ENSDART00000002055:25
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
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACTCAGATAAAGGGGTTGAGA
R:
CTGAACTGAAGGGAATGGAGT
Band lengths:
218-331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]