DreINT0040102 @ danRer10
Intron Retention
Gene
ENSDARG00000023886 | cacna2d4b
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4b [Source:ZFIN;Acc:ZDB-GENE-100422-18]
Coordinates
chr25:18957279-18957515:-
Coord C1 exon
chr25:18957470-18957515
Coord A exon
chr25:18957377-18957469
Coord C2 exon
chr25:18957279-18957376
Length
93 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
AAATGTCTGTGCCCCTTTAGGAC
3' ss Score
9.28
Exon sequences
Seq C1 exon
GTCTTCATGATCTTCAGCAGCCAGACCTCACTATAGCAGAGGAATG
Seq A exon
GTGAGTACTGAAGAGATTAGGTGAGGGTACACACCCCAAAAAACAAAAAATTAATGCTATGTTAAGCTGACCCAAATGTCTGTGCCCCTTTAG
Seq C2 exon
GACATATTGTGAGACAGATATTGACCCGCAGCACCGTAAACTCAATCAACTTCAAGCTGTGGTTCGATACCTGACTGGAAAAGAGCCCGAATTGGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023886:ENSDART00000027465:20
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
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTTCATGATCTTCAGCAGCCA
R:
ACTCCAATTCGGGCTCTTTTCC
Band lengths:
144-237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]