BtaINT0031261 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17814502-17815030:+
Coord C1 exon
chr23:17814502-17814662
Coord A exon
chr23:17814663-17814860
Coord C2 exon
chr23:17814861-17815030
Length
198 bp
Sequences
Splice sites
5' ss Seq
TGGGTGGGC
5' ss Score
2.89
3' ss Seq
CTGACCTGCTTCCTCCACAGACA
3' ss Score
11.26
Exon sequences
Seq C1 exon
GATGTCCTACCAAGATTTCCTTGGCAACTTCACCCTCCTGGAAATCTGCAACGTGATACCCGACACGCTCTCCGGGGACTACAAGAGCTGTTGGCATACCACCTTCTACGAGGGCAGCTGGCGGAGGGGCAGCACCGCAGGGGGCTGCCGGAGCTACCTGG
Seq A exon
GTGGGCTGGGTGGGGTTGGGGGGTGGAACTCGGGGCAGGGAGTGGGTGATGGGCCACTGACTCACTGCACAACCAGGCTCAGGGGCCCGGGGCAAGGGCCATCAGATGCCACTGGGCCCTGTGAGGAGGCGGGCGTGTGGCCTGGAAGCCCATCCACCCTGGGAAGGGCAGGGCCATCCTGACCTGCTTCCTCCACAG
Seq C2 exon
ACACATTCTGGACCAACCCCCAGTTTAAGATCTGTCTCCCCGAGAAGGATGACGACATAGAGGACGATGAAGCCGTCTGCACCTGCCTGGTGGCCCTGATGCAGAAGAACTGGAGGCGGACGAGGCCCCACGGAGCCCAGCTGGAGACCATTGGCTTCGTCATCTATTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:11
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:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.4=43.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(35.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACTACAAGAGCTGTTGGC
R:
GACGAAGCCAATGGTCTCCAG
Band lengths:
248-446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]