BtaINT0031271 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17819094-17819384:+
Coord C1 exon
chr23:17819094-17819172
Coord A exon
chr23:17819173-17819267
Coord C2 exon
chr23:17819268-17819384
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CACACCCCTCCCTCTCCCAGGCA
3' ss Score
9.82
Exon sequences
Seq C1 exon
GACATCTTCCGAGAGTGTGACCAGGACCAGTCAGGCACCTTGAATTCCTATGAGATGCGCTTGGCAGTTGAGAAAGCAG
Seq A exon
GTGGGCTAGGGGCGGGACAGGGTTTGGGGGCTGGGATGGGGGAGGCAGTGGCCAAAGGGCTGGACTCTCTGCTTCCACACCCCTCCCTCTCCCAG
Seq C2 exon
GCATCAAGCTGAACAACAAGGTCACGCAGGTGCTGGTGGCCAGGTACGCGAATGACAGCTTGATCATGGAGTTTGACAGCTTCATCAGCTGTTTCCTGAGGCTGAAGGCCATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:20
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:
PF134991=EF-hand_7=FE(28.9=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(43.3=100)
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:
AGAGTGTGACCAGGACCAGTC
R:
CCTTCAGCCTCAGGAAACAGC
Band lengths:
176-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]