DreINT0040068 @ danRer10
Intron Retention
Gene
ENSDARG00000026855 | cacna2d4a
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4a [Source:ZFIN;Acc:ZDB-GENE-041210-213]
Coordinates
chr4:20552232-20552465:-
Coord C1 exon
chr4:20552394-20552465
Coord A exon
chr4:20552294-20552393
Coord C2 exon
chr4:20552232-20552293
Length
100 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
TTGATGTCTTTTTTCCTCAGAAA
3' ss Score
9.62
Exon sequences
Seq C1 exon
CTGAGAACGGCGATGGTAAAAGGGGAAACTGGGACAATCTCTCTGGACGTCAGAGCAACAGTAGAAAAAGGA
Seq A exon
GTAAGTTGTATTTGACCTTTAATTTGCTGAGTTTGAAATATATCTAATTATAACCAAGCTGTGACTGTCATACTTACATGTTGATGTCTTTTTTCCTCAG
Seq C2 exon
AAAAGAGTTGTGTTCCTGAAAAATGAATATTTTTATACTACCATCAATGAGACGCCATTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026855:ENSDART00000136069:17
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:
TGAGAACGGCGATGGTAAAAGG
R:
AAATGGCGTCTCATTGATGGT
Band lengths:
131-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]