BtaINT0030557 @ 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
chr5:31120316-31120613:-
Coord C1 exon
chr5:31120594-31120613
Coord A exon
chr5:31120397-31120593
Coord C2 exon
chr5:31120316-31120396
Length
197 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACCTCAGGTCAATTCTGCAGGCG
3' ss Score
4.23
Exon sequences
Seq C1 exon
CCAAGCAGAAGCAAAAGCAG
Seq A exon
GTGAGTCAAGGAAGGGACTGGGGCTTGGGGGGCTCATGGCTTCTGGCTGTGGGGACAGGTTTCTGGGCAGTCATTGTTGAACGGGCAAGAAAACACAGAGGGGAGGGGGCCCAGATGTCTGCATCTGCCCCACCCCACTCAAGTGAAGGGCAGGCCACATGGCCATGACTTTGCCTGACCTCAGGTCAATTCTGCAG
Seq C2 exon
GCGGAACATATTCCTCCATATGACGTGGTACCCTCCATGCGGCCTGTGGTGCTGGTGGGACCCTCTCTGAAAGGTTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021808:ENSBTAT00000029069:6
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=0.148
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062516=Guanylate_kin=PU(8.3=55.6)
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:
CCAAGCAGAAGCAAAAGCAG
R:
ATAACCTTTCAGAGAGGGTCCCA
Band lengths:
98-295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]