BtaINT0031304 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008946 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr11:69118393-69118841:+
Coord C1 exon
chr11:69118393-69118429
Coord A exon
chr11:69118430-69118784
Coord C2 exon
chr11:69118785-69118841
Length
355 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTGTTCTTCCTTACATCCAGGCA
3' ss Score
8.79
Exon sequences
Seq C1 exon
GAACCTGGATGGCAGTCTCAACCTGAGAGCCCTGCAG
Seq A exon
GTAGGTGTGCCTCAAGGCTTGGTTGGCAGCCTTCAGTGGGTCACGGCCCATCCCCAAGAGCTTCTACCTCCTTCTTTCTGCCTCACCACTGACCAGTGAGTGAGAGATACCACAACGGGCTGGTGACAGCTCCAAGGGGACAGGGACGAGGGGAGAAGCCCAGGCTTCAGAGGCCAGGCTGGACCCAACCATCTTCCTTCCACAAGCTTCCATTTTCCTATTCCCCACTAAGGTTTGATCCAGTTGCTGGATGAAGCCTCTTATTTCCAAGTGGGAGGTTCTGGGTCCCTCACTGTATCAGACAGGGGATCCCTTTCCCAGAAATTTGATGTTGGCTGTTCTTCCTTACATCCAG
Seq C2 exon
GCAAGTCTTCCAGAAAATGGGTCCCAGCAGAGCATTTTCTACAAGTACGCTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008946:ENSBTAT00000044473:14
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=PD(0.1=0.0)
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
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development