DreINT0040099 @ danRer10
Intron Retention
Gene
ENSDARG00000023886 | cacna2d4b
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4b [Source:ZFIN;Acc:ZDB-GENE-100422-18]
Coordinates
chr25:18959480-18959728:-
Coord C1 exon
chr25:18959667-18959728
Coord A exon
chr25:18959548-18959666
Coord C2 exon
chr25:18959480-18959547
Length
119 bp
Sequences
Splice sites
5' ss Seq
TAGGTTTGA
5' ss Score
1.31
3' ss Seq
TGTTCATGGTTTGCTTCCAGCTT
3' ss Score
7.13
Exon sequences
Seq C1 exon
AAAAGGCCCTTGTTTCTCAAAAATGATTATTTCTACACAACCATCGATGAAACTCCATTTAG
Seq A exon
GTTTGATACGCTTCTCACATTGTCCAAATATGTCCTTATCATACTTCTTCATTTGGAAAAAGATTATTGAAAAACACACTGACGTCATTATAAGATTTCTGTTCATGGTTTGCTTCCAG
Seq C2 exon
CTTTGGGATGGTGCTTACGAAAGGTCACGGCCAGTACATGTTCTTTGGGAATGTGTCAGTGGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023886:ENSDART00000027465:18
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:
AAAAGGCCCTTGTTTCTCAAAA
R:
CTTCCTCCACTGACACATTCCC
Band lengths:
130-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]