BtaINT0030532 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002036 | CACNB1
Description
Bos taurus calcium channel, voltage-dependent, beta 1 subunit (CACNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_175819]
Coordinates
chr19:40303412-40304052:+
Coord C1 exon
chr19:40303412-40303488
Coord A exon
chr19:40303489-40303897
Coord C2 exon
chr19:40303898-40304052
Length
409 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
ATCCTGACTCTCCGGTCCAGGTA
3' ss Score
7.53
Exon sequences
Seq C1 exon
CAAATCAGGTGACAACTCCAGCTCCAGCCTGGGAGACGTGGTGACTGGCACCCGCCGCCCCACGCCCCCTGCCAGTG
Seq A exon
GTAAGAGCTGCCGCCACCCCAGGGGGTGGGGTGGAGCTCCTGGGTGGGGTGGTCTCCCCATTGCCTGTCCCTTCCTTTCCCTGCAGTAAGGGGTATCCCAATCCTGAGTCCTCCAAACACATCCAGCGGTACCCCCTCCATGAAGAGCAGGGCACCCCCCAAGCTGGGCTGGTCAGTCAGCACCCATTCTCTCATGTCTGTCCTCTCCCATTTCTTCAGTAGCTCCATCTCTCCTCCTGACTGCCCCGCCCCCTGCCCCCCATTCATTTCTCCCAGCCCTGTTCCATTCACCTCTTCTTCTTTCTTTTCTCCCCATCCCATCCCCGCGTTCTGTACTTGTGTCTCCATGTCCATCTCACTCCTCCCCACCTCGCCTCCTCCCTCCCTCAATCCTGACTCTCCGGTCCAG
Seq C2 exon
GTAATGAAATGACTAACTTAGCCTTTGAACTAGACCCCCTAGAGTTAGAGGATGAGGAGGCAGAGCTCGGGGAGCAGAGCGGCTCTGCTAAGACTAGTGTTAGCAGTGTTACCACCCCGCCGCCCCACGGCAAGCGCATCCCCTTCTTCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002036:ENSBTAT00000002640:5
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=0.808
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAATCAGGTGACAACTCCAGCT
R:
TTCTTGAAGAAGGGGATGCGC
Band lengths:
231-640
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]