BtaINT0031264 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17817109-17817669:+
Coord C1 exon
chr23:17817109-17817320
Coord A exon
chr23:17817321-17817629
Coord C2 exon
chr23:17817630-17817669
Length
309 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
CTTCGTCCACTTCTGCCCAGGGA
3' ss Score
6.29
Exon sequences
Seq C1 exon
TTTCAGAACCTCCAGGATGTCCACTTGAAAAAGGACTTCTTCGTCAAGTACCAAGACCTGGGTTTCTCGGAGATTTTCACCAACTCGCGGGAGGTGAGCAGCCAGTTCCAGCTGCCCCCAGGGGAATACATCATCATCCCCTCCACCTTCGAGCCGCACAAGGACGCCGACTTCCTGCTGCGGGTCTTCACAGAGAAGCACAGCGAGTCCTG
Seq A exon
GTGAGGGGCCCCACCTCACTACTCCAAGGCCACCTGCCCCCCACCCCGAGCTGTAGGATGTCATGCTCAGGGATCAGTCATCCGGTAGCCTCCCCCCGCCACCGACACTCTGTCCCTAATTTATAGTCAAGGAAACTGAGGCACGAGGCAGGGAAGTCCAAGGTAGTAGCAGAGTCAGAATTGGAACCCCAATCCCATGGCACCCATTCCCTATTGCTTCAGATACACATGACCTCTCCACCCTTCCCCCTGGAGTCCCTGTTTCCCTGAACCCCTGCTAACTCCACGCCTTCGTCCACTTCTGCCCAG
Seq C2 exon
GGAACTGGATGAAGCCAACTACGCTGAGCTTCTCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:14
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=0.000
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(44.9=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
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:
TTCAGAACCTCCAGGATGTCCA
R:
GGAGAAGCTCAGCGTAGTTGG
Band lengths:
246-555
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]