BtaINT0031396 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005034 | CAPN5
Description
calpain 5 [Source:HGNC Symbol;Acc:HGNC:1482]
Coordinates
chr15:57307996-57309416:+
Coord C1 exon
chr15:57307996-57308192
Coord A exon
chr15:57308193-57309300
Coord C2 exon
chr15:57309301-57309416
Length
1108 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGT
5' ss Score
9.74
3' ss Seq
TCTCCTCTGCCCCGCACCAGGGA
3' ss Score
6.98
Exon sequences
Seq C1 exon
GTGGAGGAGAACCGCCAGTACCGCATGCACAGCCTGCAGCACAGGGCCGCCAGCTCCATCTACATCAACTCCCGCAGCGTCTTCCTGCGCACGGAGCAGCCCGAGGGCCGCTACGTCATCATCCCCACCACCTTCGAGCCAGGCCACACTGGCGAGTTCCTGCTCCGAGTCTTCACTGACGTGCCCTCCAACTGCCG
Seq A exon
GTGCGTGGGGGCCGGCCGGGGGCCAGGGTTGGCCGGGCCCAGGGCCACTCCAGGCTGACCCACCATATGCAGCCCAGACATGTTCAGTGTCGTCCCAAGGCGTGGAGCCTGGGCCTCCAGCCTCCCTGGGCTGACATCAGCACCCATCTCTTTTGCCCTTCTCTCCTCCCTGTCCCAGCCTCTCTCATCCACGTGAAGGAACAACTGCTCACGTGTGCACAGCTCTTCACAGTTTACAAAAAAGCTTTCACTCATGCTGTTTGCTCTTCCTGAACGCTGGGTGGGAGGTCTGATGCTTCCATTTTACAGATCAGAATTGCGGATTGAGGTTGGGGGTAGTTTTCTGAGGTCATGCGGCTAGTGGTAGAGTCCTACTAGGTAGACCCTGAAGCCACCCCCAAGCCTGCCTCGGTGCATCCCTGTGCGTCCCCGCCCTGCCCTCCCACCTGGTAGGCAGCCCAGAGTCCCACATCCCAGACTGGGGAGGCAGCTTGTGGAATCAGTGGACCTCGGTCCGGCCGGTCTGTGCTGTGTGGGCAAGCCCTTTTCCCCAGTGAGCCTAAGTAAGTAAGTGTTAGTCACTCAGTTGTGTCCGACTCTTTGAGACGCTATGGACTGTAGCCTGCCAGGCTTCTCTGTCCATGGGATTTTTCCAGGCAAGAATACTGGAGTGTGTAGCCATTCCTTTCTCCAGGAGATCTTCCCAGTCTAGGGATCGAATCCCAATCTCCTATATTTGCAGCCAGATTCTTTACCATCTGATTCACCAGGGAAGCCCAGTGAGTCTGATGCTTCCTAGTGTGTAAAATGGGCCTAATAGTTACCTAGCTCTCAGGGCTTTGTGAGGATTAGAAACAATACCTGCTCCTCCCAGCAGAGTGCTTGACACTCCGTAAGGCATAGCACACTGCTTTTCCCTGAGGGAGGAGGGGGCACCCTGGGGTCAGGATGCAGCCGCAGGAAGCTGACAGGGGTTTGTTTGCCCGAGTCCAGCATTGCGTGGACGCAGCACTGCTCCTGCCCCTGCCTTGCCCTCGAATCCCCTGACTTTCCGCCTTCCTGGCCCCTCTCCATCACCTCCCACCTCTTCTCCTCTGCCCCGCACCAG
Seq C2 exon
GGAGCTGCGCCTGGATGAGCCTCCCCGCACCTGCTGGAGCTCCCTGTGCGGCTATCCCCAGCAGGTGACCCAGGTACACGTCTTGGGGGCTGCAGGTCTCAAAGACTCCCCGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005034:ENSBTAT00000006638:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.025
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(45.1=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0),PF0016825=C2=PU(20.5=40.0)
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:
GAGGAGAACCGCCAGTACCG
R:
CTGTCGGGGAGTCTTTGAGA
Band lengths:
310-1418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development