BtaINT0031397 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005034 | CAPN5
Description
calpain 5 [Source:HGNC Symbol;Acc:HGNC:1482]
Coordinates
chr15:57309301-57310025:+
Coord C1 exon
chr15:57309301-57309416
Coord A exon
chr15:57309417-57309888
Coord C2 exon
chr15:57309889-57310025
Length
472 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTGCCCACTCCCTTTTACAGGGG
3' ss Score
9.32
Exon sequences
Seq C1 exon
GGAGCTGCGCCTGGATGAGCCTCCCCGCACCTGCTGGAGCTCCCTGTGCGGCTATCCCCAGCAGGTGACCCAGGTACACGTCTTGGGGGCTGCAGGTCTCAAAGACTCCCCGACAG
Seq A exon
GTGAGCTTGCCTGCAGAAAGCCCCCAGCCCCCGTCCCCCAGCCACAGACAGCCTCGATAGCTCTCCTGAAATCCACTTTGGGCCCATCCTTGGGATGAAGCTGGGCACGCTGAGTGGAGCAGGCTCTGCCACCTGCCCACGGGCAGTCTCCAGTGTGCGGGGCAGTCAGGTGCAGGATCAGGCAGCTGGGAGGGAGGGTTCAGGGAAGGCTTCCTTGAGGAAGTGGCCTTTCTACAGGTCGTGGAGGTGTTAAGGTATGAAACCTGGTGCTCTGGGAAGGGGAACAGCCTTGGTAAAGGAGGCCAGAGATTAACAGTGTACCCCTTCTTATCTCTGGAAGTTAGGGAGTTGGCCAGGCTCTGGTCTCCCTTCTCCTGAAAACATGAGCCCAGGCTTCTGAATCCAGAGTTCTGTCTCATCCGGGCCCTGCCCCATTCCCTACCCTCACCCCATTGCCCACTCCCTTTTACAG
Seq C2 exon
GGGCTAACTCTTACGTGATCATCAAGTGTGAGGGGGACAAAGTCCGCTCGGCCGTGCAGAAGGGCACTTCGACACCCGAGTATGATGTGAAAGGTGTCTTCTACCGCAAGAAGCCGAGCCAGCCCATCACTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005034:ENSBTAT00000006638:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.109
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0),PF0016825=C2=PU(20.5=40.0)
A:
NA
C2:
PF0016825=C2=FE(57.7=100)
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:
GAGCTGCGCCTGGATGAG
R:
CTGCACAGTGATGGGCTGG
Band lengths:
252-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development