BtaINT0092733 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003600 | MGC151839
Description
Bos taurus calpain 8 (CAPN8), mRNA. [Source:RefSeq mRNA;Acc:NM_001081619]
Coordinates
chr16:27710369-27711718:-
Coord C1 exon
chr16:27711585-27711718
Coord A exon
chr16:27710538-27711584
Coord C2 exon
chr16:27710369-27710537
Length
1047 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TGTTCTTTCTCGTCCAACAGGCT
3' ss Score
10.63
Exon sequences
Seq C1 exon
TTCTGGCAGTATGGAGAGTGGGTGGAGGTGGTCGTGGACGACAGGCTCCCCACCAAGAATGGAAAGCTGCTCTTCCTGCATTCCGAAGAAGGCAGTGAATTCTGGAGCGCACTGCTGGAGAAGGCCTATGCCAA
Seq A exon
GTAAGTGGTGCAGGTAGGAGCTGGGAGACCACGCAGAGCTGGGGGAGCTTGCCCCCTCCCCCCTGGCTCTGGGTACCCTGACCAAGTCTTTCCCACCACCCAGACCCCACAAGTACAGTATCCTCAATAACTAAGAGAAACAGAAATTTGGGCTAGGAGTTCAAAGCTCAGCTCTGTCCCAAACGAATGTGTGAATTGGGATGTTGGCTTTGTCTTCTTAAAGCCTCCAGGTCAGTTCTTAGGTCAATGTGAGTTTTTTAAAGAGTGATGAAGAAGAAGAATAAAGCAAATATGCTTAGATATCAGATTCACCAAAGTCTCTACCCTTTGTTTGGGAGTCATTCTTCTTCACTGGCATTCAATGTTCAAAGTCTTCTTTGGGGTTCTTTTAATTCATTTTATTGATTGGTCCCCTTTTCCTGTAACCTCTGTTCCTTCCCAGCCCTATTCCCAAAGCAAGCCCCAAAGGAGTCCTCTCAGCCTTGAGGGAGGGTCCCCTTCATCCTTACCTATGCCCTCAACTCCCCCAAAACCCAAGATGTCAAGGTCAGCTCTGGATTACACTTTGCTTTTTACTTTTATGTATTATTTTTTGGCTGTGCTGGGTCTTCGTTGCTGCGCTCAAGCTTTCTCTAGTTGCAGCGAGTAAAGGCTGTCTATTTGCAATGCTTGGGCTTCTCATTAGGGTGGCTTCTCTTGCTGTGGAGCATGGGCTGTAGGCAGGCAGGCTTGTGTCCTGTAAACCCGTGTCCCCTGCATTGGCAGGCAGATTCTTAACCACTGGACCCCACCAGGGAAGTCCTGCACTTTGCTTTTTGAAAGAGCACTTGGCTTTGTGAGAGGTGTTCTGAGATCCATGCCTGGCAGAGTGCTGAGCTGGCCTTGTGAAACTGTGCCTAAACCCCTCCTTGGCCCACAGACGAAACTGACTAAGGCCCTCCTGTGCCCTCCAGGGCGCACCATGTCCTAGCGGCACTCCTGCCCCATCCCACGGGACCCCCTTGCTAATGGCTGTGGATGATACCCGTGTTCTTTCTCGTCCAACAG
Seq C2 exon
GCTCAACGGTTCTTACGAGGCTCTCACTGGAGGGTCCACGGTGGAGGGGTTTGAGGATTTCACAGGTGGCATCTCTGAGTTTTATAACCTGAAGAAGCCACCGGCCAGTCTGTTCCAAATCATCCAGAAGGCCCTCCGCTCGGGGTCTCTGCTGGCCTGCTCCATTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003600:ENSBTAT00000011676:5
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=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGCAGTATGGAGAGTGGG
R:
GTCAATGGAGCAGGCCAGC
Band lengths:
302-1349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development