BtaINT0030553 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021808 | CACNB3
Description
Bos taurus calcium channel, voltage-dependent, beta 3 subunit (CACNB3), mRNA. [Source:RefSeq mRNA;Acc:NM_174509]
Coordinates
chr5:31121735-31122171:-
Coord C1 exon
chr5:31122049-31122171
Coord A exon
chr5:31121858-31122048
Coord C2 exon
chr5:31121735-31121857
Length
191 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCC
5' ss Score
8.33
3' ss Seq
CCAACTGTTGCGTTCCCCAGCAC
3' ss Score
5.99
Exon sequences
Seq C1 exon
GGTTCAGCCGACTCCTATACCAGCCGCCCATCTCTGGACTCAGACGTCTCCCTGGAGGAGGACCGGGAGAGTGCCCGGCGTGAAGTGGAGAGCCAGGCTCAGCAGCAGCTGGAAAGGGCCAAG
Seq A exon
GTATCCTCTTGCCGGCTGGGGGCACAGTGGGCCAGGGTGGGTGGAAACTGGTGCCAGGTCCTAAGTCTCGAGGGGTCAACAGACAGGATGTGCGAATGAGTATGTGTGTGGTTGGGTGGATGGATGGGCCCTGAGCCTGGAAGGGGTGCTTTGAGGTTCCCCTCATTTGCGCCAACTGTTGCGTTCCCCAG
Seq C2 exon
CACAAACCTGTGGCGTTTGCTGTGAGGACCAATGTCAGCTACTGTGGTGTACTGGATGAGGAGTGTCCGGTCCAGGGCTCTGGAGTCAACTTTGAGGCCAAAGACTTTCTGCACATTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021808:ENSBTAT00000029069:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.976 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PU(93.0=97.6)
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PD(2.3=2.4)
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:
GGTTCAGCCGACTCCTATACCA
R:
TTAATGTGCAGAAAGTCTTTGGCC
Band lengths:
242-433
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]