BtaINT0092734 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003600 | MGC151839
Description
Bos taurus calpain 8 (CAPN8), mRNA. [Source:RefSeq mRNA;Acc:NM_001081619]
Coordinates
chr16:27709335-27710537:-
Coord C1 exon
chr16:27710369-27710537
Coord A exon
chr16:27709419-27710368
Coord C2 exon
chr16:27709335-27709418
Length
950 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGC
5' ss Score
5.28
3' ss Seq
CTTCTTTATTCTCAATTCAGATC
3' ss Score
8.69
Exon sequences
Seq C1 exon
GCTCAACGGTTCTTACGAGGCTCTCACTGGAGGGTCCACGGTGGAGGGGTTTGAGGATTTCACAGGTGGCATCTCTGAGTTTTATAACCTGAAGAAGCCACCGGCCAGTCTGTTCCAAATCATCCAGAAGGCCCTCCGCTCGGGGTCTCTGCTGGCCTGCTCCATTGAC
Seq A exon
GTGAGCTGGGATGGTTTCTCTTTGCTTCTCCTCCCTGCGTGTGGTAGGGAAGGGACCAGATCGGGGGCTCGAGGCTGGGAAGGCTTTGGGCCAGAGTCAGGGGCTTACGGGGTAAGTCCCATGATATATTGGTCCCTAGCAGGTGGGAGCTGGTGGCAAGACCTAATTAATGGATAGGGACCAGAGTTTGGTCTCATAAACTCAGAAATTTTAGGAGCCCTAAGTGTCAAGCCCCTTTAGTTCTGCAGGAATTGCCCTAAGAATGTAGTCTTGACCCCTCGATCCTGGGCCCTACTTTTGCTATCCCCTTTTGGCTAAGTAATCTTGGGATTTTTGGAAATACAGTGATCAACAGTATATGATGGGGGCTTGGAGCTCACTGAAGAAAAGGGAAGAGGTTTTGAACGAGGGGTGATGCTCTGGACGCCACCAGCCCCTCCACCTGCTCTTTCTCTCCTTACCTGGTGGTCTCACACATATAAATGACCAGGCAGGAACAATCTCCCTTTCTGCTCTCTATAAAAACCCCAGCAGGATATGTGTGATTTTTGGTAGAGAAGTGATGTGGACCCTGGGGAGGGCATGGGACTATTGAGGAGGGACTCTGGGGACCCCCGCTGGTGAACTGGGACCGGTCCAGAGGGGTTGTCATGGTTAATCTTCTGCAGGCAGTCGTGGGATCCCTCTTGGGGAATAAATTACTTCCCAGCTTCCTATGTCATTTTAAAGGCTTGTCAGTCATTTCCCAGGACTGGCAGGCAGGCCTGATCAAAGAGGAGTAGATGGAGAGAGCTCTGTTGACCTGGGGTTAATTGCTCCGCCTGCATATATCCCCAGTCCTGCACTGGGACCCTCTGGCTGTGCAGCATATGCTTAGAAAGCCTTGTAGGACTGGTCCCAAGAAGGTCAAGTTCAGCCACTCTGAGTGGACTTCTTTATTCTCAATTCAG
Seq C2 exon
ATCTCCAGTGCAGCCGAAACGGAAGCCATCACCAGCCAGAAGCTGGTTAAGGGTCACGCATACTCTGTCACAGGAGTTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003600:ENSBTAT00000011676:6
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(18.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.0=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:
GCTCAACGGTTCTTACGAGGC
R:
ACTCCTGTGACAGAGTATGCGT
Band lengths:
246-1196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development