BtaINT0031405 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005034 | CAPN5
Description
calpain 5 [Source:HGNC Symbol;Acc:HGNC:1482]
Coordinates
chr15:57304383-57306073:+
Coord C1 exon
chr15:57304383-57304460
Coord A exon
chr15:57304461-57305877
Coord C2 exon
chr15:57305878-57306073
Length
1417 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CAGCCCCTTGCCACACCCAGGAT
3' ss Score
3.56
Exon sequences
Seq C1 exon
CTCAGAGGAGTGGCAGAAGGTGAGCAAGAGTGAGCGGGAGAAGTTGGGTGTGACCGTGCAGGATGACGGCGAGTTCTG
Seq A exon
GTGAGTGTGCCCTTGCCCAGGGCAGGTGTCCAGGGCTGAGAAGGGACCCTCCTGTGTGCCAGGTAGGGAGCACTGGGCAGGATGGCAGGAGTCGGGGCTCTAGCCAATGCCTCATGGTCAACTTGTCGTGTGACCTTGGACAAGTCACGGCATCTCTTTGGGCCTGTTTCTGCCCCTGTGAAGTGAACTAGGCAGAATGGACCATTTTGTCCCCATGGTTTCCCACCTCCCACCTCAGGGGACCCTGCGCTGCTCTGGTACCCAGGCAGAGCCCTCGGCAAGTAGACCAGGGTACTAGACCAGGTACTAGTGGGCAGTTGACCAGAGGACGTAGGGCACATGGCTGCCTGATGCCAAGAGCAGGTAGGAAGAGGAGAGGCCTCACAGAGGAGCTAAGACTCAGGGTGCAAAGGAGCCTTGTGGAGACCCAGCCCAGAGGCAAGAAAGCATGCTTGGGTTTGTGGAGAGTGAGTTCAGGGAGGCAAGGCAGGTTGGCTGGGAAGATCATAGCAGCCTGGCTTAAAGAGCATATTCATGATTTGTGCATTCATTCACTGTTGCATTCATTCATTCTACATTTAGCCCTGGCTGTATGCTAGGCTCAGTGTCTGTCTTCAGCAGGACACTTTATTTGGAGACTGAGGGGTACAGGGTACCCTGTGTGTGGGAGATGCTATGAGGGCTCCAGGCAGACCCAGAGGTACATGGCAATGATCTTGGCACCCTAGTGAGGTCCCCTCCTGAAGGTGTCAGGGGAGTCGCTGCAGGAGACCCACCTAGGCCCTCTGGTCTGGGCTCCTGTGGACGAGATCCACTTTGCCCAGTCTGGCTCAGGGGCCAGTTGAATTAAAACAGCAGTAGAAAACCCTCATTAGGAATGGGAAGAATTTCTCGTAAGGCCTTTCTTATATATCTTCACCCTTGATGCATGTATGTGCATATTCTCATGTATGTGCACACTTGAAGGAGGGTGGGCCCTTCCCTTCCTCCCACCCAGGCTCCTGGAGGGGTGGCAGCATCCTGGTCACTGCAGCTCACTTAGCAAGGGGTTCAAACCACTAGCCGTGGACTATAATGGATGGAAATATGCTTTAGAAACTGTAGAGGGCTGTACATATCAGTTATTCGTACTAGTAATGATTGTAACAGCCAGCCTTTGCCAACTCCTTTCTGCCAGAAGTTGTACTACATGTTTTTATTGAGTAGCTTAATTCCTGTGCAAACTCTGCGAAGTAGGCAGCTGCTGTTAGACTGATGCCCATTTTACAAAGCAGGAGACTGAGGCCACAAGAGACGTGAAGGGTCCCTGTGAAGCCATGTCTGCGCTTGCTGTGTGGGCCATGGTCCAGAGGGTGTGGGGCGAGTGGGTAGCTGGCGGGGAGGGAGACCGGCCGGCTCAGCCCCTTGCCACACCCAG
Seq C2 exon
GATGACCTTCGAGGACTTGTGCCGCTACTTCACGGACATCATCAAGTGCCGTCTGATCAACACGTCTTACCTGAGCATCCACAAGACATGGGAGGAGGCCCGGCTGCGTGGCGCCTGGACGCGGCACGAGGACCCACTGCAGAACCGAAGCGGGGGCTGCATCAACCACAAGGACAGCTTCTTCCAGAACCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005034:ENSBTAT00000006638:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.0=28.8),PF0106717=Calpain_III=PU(25.0=54.5)
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:
AGAGGAGTGGCAGAAGGTGAG
R:
CTGCGGGTTCTGGAAGAAG
Band lengths:
271-1688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development