BtaINT0030533 @ 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
chr19:40303898-40305218:+
Coord C1 exon
chr19:40303898-40304052
Coord A exon
chr19:40304053-40305137
Coord C2 exon
chr19:40305138-40305218
Length
1085 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
CCCTCCCTGCTTCCCCCCAGACA
3' ss Score
10.52
Exon sequences
Seq C1 exon
GTAATGAAATGACTAACTTAGCCTTTGAACTAGACCCCCTAGAGTTAGAGGATGAGGAGGCAGAGCTCGGGGAGCAGAGCGGCTCTGCTAAGACTAGTGTTAGCAGTGTTACCACCCCGCCGCCCCACGGCAAGCGCATCCCCTTCTTCAAGAAG
Seq A exon
GTAATTCTTACTGCGTTCTTGTGAGAGGGGAGGTCAGGGCCCAGCTCTTCGGTGGGTGGAGGGGGGCTGGAATGGATTCAGATGGGGTATCGGCCTGATTTTGTGGGGATCAGGCCTTCCTGCCGAGGAGGAGGGAAGGGTAGAGTGGCACCCAGAATGGGCACGTCTGTCTCCATGCACAACCCCACCCTGGCCTTCTTGCCCAGAAGGGATGGTTCTTGCCATGGAAGCAGCCCTTCTAGCCCCCGCCCCCCAACTGAAAGCAGATCTGGTTGTAATGAAACCTGACGTTTCCCCCTCACTACCAGTGGCATATTCATGTTTGCCCTTGCCCCCAGATGTGAAGGGGAAAGTGGAATGGTGACTCTTCTTTGCCCTTTTCAGATTAGGGTGCCCAGGGATCTCCTGGCTGCAGAGCAGGACAGTTAAGGGAACCCTTACAATGGGCAGGTTGGCCTGCACTGGGGCCAGGAGATGGGCACCAAATTAGGGGCTATCACTCTTTCCAGCTTTTTTCCAAGACCCGGAAAGGGGGTAGAGGATGTCTGAATATTCCAAAGTTCACCGGACTGGCTGTCAGTCCCACTCCTGGCCCTGATCCAGGGCCATCTCTGGCTCCCCCTTGGCATGGGGTCCCATCCCCTCTCTCTGGCTCTGTCTGTCACTAACACGCATGCCCTGTTATCTCTCCTCGTCCGCCCGCTCTCCCTCCCTCTCTTGTCCTGGCTCCTCCCTTGCCCTCTGCCCCTGCCTGGGTACCCTCCCCTTTCTCCTCCCCCTCCCCCATCTTGGCAATCTCTGGACCCAGCCAAACAGAAGCAGAAGTCGGGTGAGTAGCACAGCTTTCTATGTTTCCCTCCCCACCCTCTGGGATGAGCTAGGGGGACCTTCTAACACCCATTCCCATATCTGCCCCCATTTCCTCCCCCCCATTCCTGGTTCTCCCTCCCCACCCCTACCCTGATCCCCTACATCTGGGCTTTGGGACCAGGGGGAGGAAAGGATGCATGCGGGAGCCTGGAGGCGGGGGGAGAGGGGCTAATGCCATCTCCACTCTGGGGTTTCCCCTCCCTGCTTCCCCCCAG
Seq C2 exon
ACAGAACACGTGCCCCCTTATGACGTGGTACCTTCCATGAGGCCCATTATCCTGGTGGGACCGTCGCTGAAGGGCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002036:ENSBTAT00000002640:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.808 A=NA C2=0.213
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:
TGAAATGACTAACTTAGCCTTTGAAC
R:
CTCATAGCCCTTCAGCGACG
Band lengths:
232-1317
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]