BtaINT0031268 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17818105-17818523:+
Coord C1 exon
chr23:17818105-17818169
Coord A exon
chr23:17818170-17818454
Coord C2 exon
chr23:17818455-17818523
Length
285 bp
Sequences
Splice sites
5' ss Seq
GATGTATCT
5' ss Score
3.04
3' ss Seq
TTGACTGCCTCTCCTCTCAGAAA
3' ss Score
9.9
Exon sequences
Seq C1 exon
TCAAAAACTTCAAAACCAAGGGCTTCAGCCTGGACGTGTGCCGCTGCATGGTCAACCTCTTGGAT
Seq A exon
GTATCTTCCCGTCCAGTGGGCCGTCCTGCCCAGTGCTATCCTGCCCCAGCCCCTACCCCTGAGCCTGGCCCCAAGGCGGCCACCTCTCTGGCCAGCCATGCCCTCCTTCTGGATGGGGATTAGGCTCTGGGGTGGCAAAAGACGCCAGTTCTTCTGGCCGTCACCACAGTTACCTACAGGGCCCTTTGGCCTTGGTCCCCACCTTAGTGAGCCGCTCTGCTTCCTAGCCCCTGGAATGTCCTCCCCACCCTCTCCTCTGATATCCTTGACTGCCTCTCCTCTCAG
Seq C2 exon
AAAGATGGCTCTGGCAAACTGGGGCTTCGGGAGTTTCAGGTCCTGTGGAGAAAAATCAAGAAATGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:18
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:
PF138331=EF-hand_8=FE(34.4=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(29.5=78.3),PF134991=EF-hand_7=PU(5.6=21.7)
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:
TCAAAAACTTCAAAACCAAGGGCT
R:
CGTCCATTTCTTGATTTTTCTCCACA
Band lengths:
134-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]