BtaINT0030535 @ 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
chr19:40305678-40306030:+
Coord C1 exon
chr19:40305678-40305736
Coord A exon
chr19:40305737-40305920
Coord C2 exon
chr19:40305921-40306030
Length
184 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCCTTTGCTCTGCCCCCCAGGAT
3' ss Score
11.09
Exon sequences
Seq C1 exon
GTTACAGATATGATGCAGAAAGCTTTATTTGACTTCTTGAAGCATCGGTTTGATGGCAG
Seq A exon
GTAAGCCCTTTGGAGCTGGCTCTCCATGCCCAGCATGGTTCTCTGCTGCTGGGGTTGGGCAGGATGGCTTGAATGACAATCCTGGAACTCTTGGACTGAGGGCTACAATGCTGTCCTGGAGCCTGGGGAGGAGGCAGGACATTTTAGCCCACCCTGAACCCTGACCCTTTGCTCTGCCCCCCAG
Seq C2 exon
GATCTCCATCACACGTGTGACAGCGGACATTTCCCTGGCTAAGCGATCAGTCCTCAACAACCCCAGCAAACACATCATCATCGAGCGTTCCAACACACGCTCCAGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002036:ENSBTAT00000002640:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(10.5=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(20.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACAGATATGATGCAGAAAGCT
R:
CTGGAGCGTGTGTTGGAACG
Band lengths:
164-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]