BtaINT0031270 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17807549-17808229:+
Coord C1 exon
chr23:17807549-17807796
Coord A exon
chr23:17807797-17808159
Coord C2 exon
chr23:17808160-17808229
Length
363 bp
Sequences
Splice sites
5' ss Seq
AGTGTGGGC
5' ss Score
-2.37
3' ss Seq
CCTTTCTCCCTTCTCTGCAGCAA
3' ss Score
10.86
Exon sequences
Seq C1 exon
AGACCGTTTTTGACAGAGGGATTGCAGCCCGCATAAGCCAGAACCGACTCAAGGCCAAGGGCATGGGCCAGCACCACAACGCCCAGAACTACAACAACCAGAGCTTTGAGGAACTGCGAGCACTCTGCCTACGGAGGGGAGAGCTGTTCGAGGACCCCTTTTTCCCTGCAGAACCCACTTCACTAGGCTTCAAGGAACTGGCACCCAACTCCAAACACGTGCAGAACATCAGCTGGCAGCGGCCCAGT
Seq A exon
GTGGGCACCGGGAGGGGAGGCGTGGACTCCTGGGGGATGGGACATGTAGTGATGCCGCAGTCCCTTGCATGATTTCCAATCCCTCACCGCCCTCTCTTGGCTCTGCCCTGGATTCCACCTCCATTCGGGTTAAGGACAGTTCTGAAAGTGCTTAAGTAAAATCTCTCGGATGACCCTGGGAAGGTCACTCACTGACTTTTGCTGTCACAGCTTACACCTATGGCAGCTTCCCCCCTCCGCCCCATCTCCCCCATCCACGTTTCCCCTAGAATCCAAGAGGCAGGCAGTATTCCCCGAGGAGGTAGGAGGGAGGTTAAGAGGGGATGGCTTGGGCTCTCTGAAACCTTTCTCCCTTCTCTGCAG
Seq C2 exon
CAAATCACAAGCAATCCTCAATTCATCGTGAATGGGGTCAGCCCAACCGACATCTGCCAGGGTGTGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.349 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(11.3=41.0)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(7.6=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:
AGACCGTTTTTGACAGAGGGA
R:
CGAGCACACCCTGGCAGAT
Band lengths:
318-681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]