GgaINT1008192 @ galGal4
Intron Retention
Gene
ENSGALG00000025788 | CACNB1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:HGNC Symbol;Acc:HGNC:1401]
Coordinates
chr27:4113264-4113832:-
Coord C1 exon
chr27:4113756-4113832
Coord A exon
chr27:4113410-4113755
Coord C2 exon
chr27:4113264-4113409
Length
346 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
CGGCCCCGGCGCGTCCCCAGGTG
3' ss Score
7.74
Exon sequences
Seq C1 exon
CAAATCGGGTGACAACTCCAGCTCCAGCCTTGGCGACGTGGTGACGGGGACGCGCAGGCCCACCCCTCCGGCCAGTG
Seq A exon
GTAAGGATGTCTGGGCTCCCCATGGGGAGCAGGGCTGGCCCGGCACAGGGTTGGGGGGCCTTGTCCTGCTGGGGACTGGACGCCTCTCCCACTGCCCCTCCTGCAGCTGGGTCCCCTCTTCTACCTTCCCAGCACTGGGAGGGACATGCAGCCCCCCTGGTCCCTGCGTGGGACCAAAGTGCAGCCCCACATTGCACACTCATGCACACATCCAAATAAGCGTGCATGGGGTGCCCCCCCAGCCCTGGGTCCCTGCACTCCTCACATCCCCTGCTCCCATCCACTCCCCCCTTTCACCACCATTATCACTGTTCTTCTCTCCCCTCCGGCCCCGGCGCGTCCCCAG
Seq C2 exon
GTGCCCTGGACACACCTAGCTTTGCCTTTGAGCCCGATGAGTTAGAGGAGGAGGAGGCTGCGGAGACCCACTGCTCCCCTAAGAGTAGTGTGAGCAGTGTCACCACCCCCCCCGCCCACTCCAAGCGCATCCCCTTCTTTAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000025788:ENSGALT00000043800:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.905
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAAATCGGGTGACAACTCCAG
R:
TTCCTAAAGAAGGGGATGCGC
Band lengths:
222-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]