BtaINT0031275 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17809337-17810387:+
Coord C1 exon
chr23:17809337-17809455
Coord A exon
chr23:17809456-17810253
Coord C2 exon
chr23:17810254-17810387
Length
798 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
ACCCACCTTGCTACCCCCAGATC
3' ss Score
8.61
Exon sequences
Seq C1 exon
GAGACTGCTGGCTGCTGGCTGCCATTGGCTCTCTCACTGCGTACCCCAAACTGCTGTCCCGTGTGGTGCCCAAGGGGCAGAGCTTCAAGAAGAACTATGCTGGCATCTTCCATTTTCAG
Seq A exon
GTGAAGGACAGTTTGAAAGCCAGAGTTGATTTGTGTTTGAGGCGTGTGCATGTGTGTGCGGAGGCTGTGTGAGAGACAATTAGTACATGCTTTGAAGCTTACCTTTCCCCTTTCCTTTTGGAAAAAAAAAATGATATCTATTAGGGTAGATTTTTGCCTAATTATTAGAGAAATATCCTCTCACTAAAGAAATTGTGTAAGCTAAGCTTTTAAAGCCCCAAAAGAAAATAGTTGTATTGGTTTGTGATTCTCCTCTATCTCTTTCTCCTGCTTCTCGCTGTGTCGTGTCTTTCCTTCTCTCAGTAGAAACACACATATATGTATCAATATATGCATGTGTATGCGTGTGTTTGTCAACATCTATGACATGGGAGTTTCGCATAATTTTTGTCATCTGCTCTTTAAATTATGCAACATGTGGACAAATTCCTCGGGTCATAAAAATATTTCTGAAAGTCACGAGAGTTTTTCTGAATCACAAGACCTCAGAAATAAAAGACCAGCCAAGGTCCAAAGGCAGGTGGATCTAGACCACGGCAGAACCTGACTAGAGGCTGGAGGGCCTGTCAGATCTTTCAAGCTTTTCTGGAGGTGGGTGGGCTCTCTGTCACTGGTGTGTCATTGAATTGGCCACCAGGGGGCACTTGGGTAGCAGTCCTCCTGCAAGGAGAGGGGAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCACGCGCGCTCACATTTGGAAGGGGGCCTGGGGCAGACAGACGCCCACACCCCGCTGACACCCACCTTGCTACCCCCAG
Seq C2 exon
ATCTGGCAGTTTGGGGAGTGGATGGACGTTGTGGTGGATGACCGGCTGCCCACAAAGAATGGCAAGCTGGTGTTTGTGCACTCAGCGGAGCGCACTGAGTTCTGGAGCGCCCTGCTGGAGAAGGCATATGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:4
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=FE(12.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.6=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:
GAGACTGCTGGCTGCTGG
R:
GCATATGCCTTCTCCAGCAGG
Band lengths:
250-1048
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]