BtaINT0031340 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015865 | CAPN14
Description
Bos taurus calpain 14 (CAPN14), mRNA. [Source:RefSeq mRNA;Acc:NM_001192425]
Coordinates
chr11:68697624-68699038:+
Coord C1 exon
chr11:68697624-68697698
Coord A exon
chr11:68697699-68698874
Coord C2 exon
chr11:68698875-68699038
Length
1176 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTT
5' ss Score
3.5
3' ss Seq
TTCTTTTATTGTCTGCACAGGAT
3' ss Score
8.56
Exon sequences
Seq C1 exon
CTCGAGTATGTGGGACCTACTGAGCCCCAAGGAGAAGATTCTGCTGCTGAGAAAAGATGATGATGGAGAATTCTG
Seq A exon
GTATTTGACACAGGGACTCAGGACAGACGCCCTGGCTTACATTAGGACATCCATTCAGTAGACATTTATAGGATGCCTCATATATGCCAGGCATTTCTTTTAGGAGATCAAGAAGACCCTTTAGGGGCTCACAGCCTAGCAGAGCAATCCAACATCCACAGTCTCTGTTCTAAGAGCAGAGACCTGTGGCATGGAGCTCAGTGGGTGCTCAGAGCAGAGAGTGTGGGTGGCCACCACCTCCTCTATGACTGCTGTTTCTTGCCAAACTATAAGCTACTCCACCTGCGCCCTCCAGAGCAAAGCGGTACTACCCTACCCACCCCAAAGCCTCTAACCTCTTTTTATGAATGGCCAATGCCCTGAGCTGATGCTGCTTTTGGGTGTCTGACACGAGACCCACCTGTTCTTCATTTCCTCCGCATTTCACCCTTTCCAACCTGTCCCACGGGCCCCTCTTCTCCCCTTACCAATCCTTTTCAGACTTATTCTTAAAGAGGTCATTGAACTCAAGAGCCCTGGAAATACTACTACTTTCCTGTTACAGAGAGTAAACTGAGCATTTGCTGGTTCAGGTGGCATGCCTCGGGCCATAACATTAGCCTGTAGGGGCAAAGATTTTTTTAATCAATAGATGACTAGGAACAGATCTGTGTGATTCTCACTGAACATGTCTAATACCCCAATTCTGCTTTATCACCACCATCAGTGGCACAGGATCATTGCCCTCAGGCAGCCGTTGTTGGAGGCTGCTTTCAGCCACAGAGTAGGGTTTCTCCGTAGCACCACTTGCTGGTGATGGACCCTCACGCTGCTCCAGCCAGCCCCACTCACCTGGGTCTGCATGAGGGCATGGAGGATGGGGCCCTGGGTCTGGAGAGGGCTAGGTGCCTGATCCTTAGTTGCAGCTTCCCTCTGGTCCTAATGACTGAATGTCATCTCCATGGGCTTCCCTGGTGGCTCAAAGGGTAACGCATCTGCCTGTGATACGGGAGACCCAGGTTTGATCCCTGGGTCGGGAAGATCCCCTGGAGAAGGAAATGGCAACCCACTCCAGTATTGTTGCCTAGAGAATCCCATGGACAGAGGAGACTGGTGGGCTACAGTCCATAGGGTCGTAAAGAGTCGGATGCAACTGAGCGACTACACTTTCTTTTCTTTCTTTTATTGTCTGCACAG
Seq C2 exon
GATGTCACTGCAGGACTTTAAAGCACATTTCATGCTTCTGGTCATCTGTAAACTGAGCCCAGGCCTGCTGACTCAGGAGGTGGGCCAGAAGTGGTCGTACACCATGCTGGAGGGGAGATGGGAGAATGGGAGGACTGCTGGTGGCCAGATGAAGTCGCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015865:ENSBTAT00000021091:9
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=0.107
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.5=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.5=33.9),PF0106717=Calpain_III=PU(16.4=44.6)
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:
TCGAGTATGTGGGACCTACTGA
R:
CTTGGGGCGACTTCATCTGG
Band lengths:
238-1414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development