BtaINT0030536 @ 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
chr19:40305921-40306328:+
Coord C1 exon
chr19:40305921-40306030
Coord A exon
chr19:40306031-40306176
Coord C2 exon
chr19:40306177-40306328
Length
146 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CCATGACTCCACTCGCCTAGCTG
3' ss Score
1.6
Exon sequences
Seq C1 exon
GATCTCCATCACACGTGTGACAGCGGACATTTCCCTGGCTAAGCGATCAGTCCTCAACAACCCCAGCAAACACATCATCATCGAGCGTTCCAACACACGCTCCAGCCTGG
Seq A exon
GTGAGCCCATCCCTTGACTCTGCCCCCACCCTGCTCTGGGGCCAGATGTGGGAGTGAGGGGGCATCTCCAGAAACACTCTATCTGCCCACTGCCTCCTGGGAGGCTGCCTTATATTTACCCCTTCCCCATGACTCCACTCGCCTAG
Seq C2 exon
CTGAGGTTCAGAGCGAGATCGAGCGGATCTTTGAGCTAGCCCGAACCCTTCAGTTGGTTGCTCTGGACGCCGACACCATCAACCATCCAGCCCAGCTCTCCAAGACCTCACTGGCCCCCATCATTGTTTACATCAAGATCACCTCTCCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002036:ENSBTAT00000002640:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(20.4=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(27.6=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:
ACGTGTGACAGCGGACATTTC
R:
AGGAGAGGTGATCTTGATGTAAACA
Band lengths:
247-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]