BtaINT0031321 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015865 | CAPN14
Description
Bos taurus calpain 14 (CAPN14), mRNA. [Source:RefSeq mRNA;Acc:NM_001192425]
Coordinates
chr11:68698875-68700537:+
Coord C1 exon
chr11:68698875-68699038
Coord A exon
chr11:68699039-68700373
Coord C2 exon
chr11:68700374-68700537
Length
1335 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTGCTGTGTTTTGCCCCAGACA
3' ss Score
9.26
Exon sequences
Seq C1 exon
GATGTCACTGCAGGACTTTAAAGCACATTTCATGCTTCTGGTCATCTGTAAACTGAGCCCAGGCCTGCTGACTCAGGAGGTGGGCCAGAAGTGGTCGTACACCATGCTGGAGGGGAGATGGGAGAATGGGAGGACTGCTGGTGGCCAGATGAAGTCGCCCCAAG
Seq A exon
GTGAGTGTGTATATGGAAGCCAGAGGCTTTCGCGGCTAAAGTGGCAGCTTCTCCAGGCAAAGACGGGGCTGTGGGCAGAGCCGTTCCCCGGGGCACCTAGCTGAGGAGGTAGGGGGCTTTGCTGGCCGAGCTGTGTGTGCTGGCCCTGGGCTGTGCCCAGTGGGAAGATGGGACACCTTTGTCCTAATTTGCACAGAGGCATAGAACTCTGTCAAGCTGCCCATCTGTTGCGGTTGCAGCTTTCTAGAGGGTGGGTTCTCTTTCCCCCAGCACCAGGAGGCCATAGGTGCACATGCATAATAGAAAAGTTACATCTTTCTGTGGTTTTTGGACAAGGCCTTAGATGTGCTGAAGTAACAACCCGGTAACAGGCAGGATTGGAATTAATATTTATATTGTATGTATCAGGCCCTCTTTACTTAGAGTTTGATAGAGAAACAAAGTCGAGGATTCCCAGGTCATCAAGTACAAGAGATGAACATATATACATTCTCCAAGTGGAGTGGTTTGGGGACTGCATCCCTTTCTCCACAGTGGAGGTACTGAGCCATCTCCATGGTAGGAAAGATTAGAGGGGTAGGATCTCAGCAAGGTCACAGTGGTCTTAGCTCTGACTTTCTCTCCCCCTCAGCCCTGACTTTCTCTCCCCTTTAGTGTCCCCCCAAAGGCTGAAGCTCCTCATAAGCTAAGGCTTGGTCCCCGTTAAAATGCAGCTGCCCTGGCACCACGGGCATCTTCTCTCCAGTTAGTTAACACAGTCACCAACCCAGGCAGTGAACATACAGGACACAAAGTCTGTGCCAGGCAGTGTGCTGGGCCAAAGCTATTAATACAGGGAGAGTAACCTTTGGTCTCAGAGAAGGCAATGCCAACCCCCTCCAGTACTCTTGCCTGGAAAATCCCATGGACAGAGGAGCCCGGTGGGCTGCAGTCCATGGGGTCGCTAAGAGTTGGACACAACTGAGCGACTTCACTTTCACTTTTCACTTTCATGCATTGGAGAAGAAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGGTTGTCGTCTATGGGGTCGCACAGAGTCGGACACGACTGAAGTGACTTAGCAGCAGCAGCAACCTTTGGTCTGTGTGTCCACAAAAGAACCCGAGGTGGAGGAGGTGGGTGGGAAAGGGACAGAGCTATGGTGGAAGAGGCCCCAGCTCTGTCCAGGTGGCCCTGGAGTGGGAATCCCAGGGAGGCGCCCTGTATCTGTGCCCCTCCCTGTGGTTTGGCAAGCAGGATGCTAGGGAAACTTGTCTCACCTTGCTGTGTTTTGCCCCAG
Seq C2 exon
ACACATTTTGGAAGAACCCACAGTTCCTGCTGTCAGTCTGGAGGCCCCAGGAGGGCAAGAGGTCCCAGTTGCTCTGCAGCGTGCTGGTATCCCTGCTCCAGAAGCCCAGACACAGGCACCGCAACTGGAAGCCTCACCTCGCCATTGGCTTCTACCTCTTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015865:ENSBTAT00000021091:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PD(6.5=33.9),PF0106717=Calpain_III=PU(16.4=44.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(35.5=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:
TGTCACTGCAGGACTTTAAAGCA
R:
CCTGAAGAGGTAGAAGCCAATGG
Band lengths:
326-1661
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development