BtaINT0092724 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003600 | MGC151839
Description
Bos taurus calpain 8 (CAPN8), mRNA. [Source:RefSeq mRNA;Acc:NM_001081619]
Coordinates
chr16:27687548-27689444:-
Coord C1 exon
chr16:27689387-27689444
Coord A exon
chr16:27687613-27689386
Coord C2 exon
chr16:27687548-27687612
Length
1774 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
CTTTCTATTTAAATATTTAGGAA
3' ss Score
8.24
Exon sequences
Seq C1 exon
GATTCTGAGATCAGGGCCAATGAACTCAGGACAGCTCTGAATGAAGTGTTTTCCAAAC
Seq A exon
GTAAGTTCTTGATGGGGCCTTTTCAGGAAGTCTGGGAGCCTAAGAGAGATGTTGGGAGCTAGTGAGCGTGGGGGTGGGCACTGGGTCAGGGGCACTGCAGATGGGGACCAGGGCCCTGATTCCATCTGTACTGAGAATGTCTGGCAGGTGGGAGAGGCTGGAGCAGAGGGGTGGTGGGCAGGGTGAGAGCGGGGCTGATGCTGGGGCCACTCGGCCCTACAGCAAAGAGTCCTGAGTCCTGGCGGGAAAGAAATTGGGCTTAAAGTGACTTAAATGAAATTCTCCCACAAAATTAATAAGTTGGTACTGTGGAAGCTATGCAGCTTGAAAATCCTGTTCTGTAGTGCACCTCTGGGGAAGGCGTGTGGAGGGGAGGATTCTGCCTGTCCTCGATCATGACAGTTCTCAGTCTTCAGACTTTAGCTAAAGTCCTGAGGGCTGGAAGAGGATCAAACTGCACCCAGGCTGAGAAAAATCATGTTCCTCCCCTATGAACTGCAGATCCATGGAGCTGGTTTCTTGCCCAGCCCGAGGATGGGCCAGGTTAACGCTTCTGGCTGGTTGAGCGATGGGTATGTTCACCCATGGCAGCCAGAAAGGGTCCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCAATTTAGCAGTAACATTAACAGTTACTGTTTGAGAGGCTGTGTGTTGTGGTTAAAAGCTTGGGCTGTGGAGCCAGATGGCCTGTGTTTAGATCGCAGCTCGGCCTGGGTTCTGTGATCTTGAGCAAATTATTTAACCTCTCTGGGCCTCTGTTTCCTTATCTATAAAATGGGTATGAAGGTATTTACCACATGGGGTACAGTTCTTAGAGGGCTTCCCTGGTGGCTCAGTTGTAAAGAATCCACCTGCCAACGCAGGAGACGCAGCTTTGATCCCTGGGTCGGGAAGATCCCCTGGAGAAGGGAATGGCAAGCCACTCCAGTATTCTTGGCTGGGAAATTCCATGGACGGTGAAGCCTGGAGGGCTGCAGTCCATGCATGCGTGCTAAGTCACTTCAGTCGTGTCTGACTCTTTGTGATCCTATAGACACAGGCTCCTCCATCCATGGCATTCTCCAGGCAGGACTACTGGAGTGTGTTATCATGCCCTCTTTCCATCTTTCCAATCTGGGTATCAAACCCACATCTCCTGAGACTCCTGCATTGCAGGCAGATTCTTTTCTGCTGAGCCACTTGGGCTGCAGCCCAAGGGGTCTCAAAAGAGCTGGACTTGACGTAGAGACTAAACAAAATAGAGTGCTTTGAACAATACCTGACCAATAAAAAGTTAGCTGATTTATTAAGACCTTGTCATAGACCAAGCACCATGCTAAGAACTTCACTTACATTATCTAATTTTATCACCAGTTAGCTTTGGGGGCAAGTATTATTGTTGTTCTTATTGATGGAGCAGAAAAGCACAGCTCAGAGATATTAGCTTGCTGAAGTCCGTGGCTTGTGAGTTGCAAAGCTGAGATTCTGACACTGAGCCCCGAGGCCAGCATCCACCTCTGGGACCCCAGGGGGCCTCTTCCCAGGAGCCCGCCACCAAGCTCACTCGTTTATGCGGCGCTCACGTTCGGCTCTGTACTCTGGCTGGTGTCTTTGGTGGCCTCCTACCAGGGCAATTATTTCCCGTGCTTTCAAATGATCCTGACTCCCCTCACCCCTTTCTATTTAAATATTTAG
Seq C2 exon
GAACAGACATCAAATTTGATGGATTTGACATCAACACTTGCAGAGAGATGATCAGCCTGATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003600:ENSBTAT00000011676:16
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:
NO
A:
NA
C2:
PF0003627=EF-hand_1=PU(31.0=40.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development