GgaINT1008194 @ galGal4
Intron Retention
Gene
ENSGALG00000025788 | CACNB1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:HGNC Symbol;Acc:HGNC:1401]
Coordinates
chr27:4112126-4112345:-
Coord C1 exon
chr27:4112265-4112345
Coord A exon
chr27:4112185-4112264
Coord C2 exon
chr27:4112126-4112184
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTCCTCCTCCCCTCCCGCAGGTG
3' ss Score
13.03
Exon sequences
Seq C1 exon
GCTGAGCACGTGCCGCCCTACGATGTGGTTCCCTCCATGCGGCCCATCATCCTGGTGGGGCCGTCGTTGAAGGGCTACGAG
Seq A exon
GTGAGGAGTGGGGACCCCAGGGTGGGGGGGACACACAGAAGGCCACATCAGTTCCATGCACTCCTCCTCCCCTCCCGCAG
Seq C2 exon
GTGACAGATATGATGCAGAAAGCACTGTTTGATTTCTTGAAGCATCGCTTTGATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000025788:ENSGALT00000043800:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PU(8.3=55.6)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACGATGTGGTTCCCTCCA
R:
AGCGATGCTTCAAGAAATCAAACA
Band lengths:
114-194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]