BtaINT0031389 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008868 | CAPN3
Description
Bos taurus calpain 3, (p94) (CAPN3), mRNA. [Source:RefSeq mRNA;Acc:NM_174260]
Coordinates
chr10:37863535-37864641:+
Coord C1 exon
chr10:37863535-37863703
Coord A exon
chr10:37863704-37864494
Coord C2 exon
chr10:37864495-37864641
Length
791 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CCCTCCCTGTTGGGCCTCAGGAT
3' ss Score
8.28
Exon sequences
Seq C1 exon
GCTCCATGGTTCGTATGAAGCCCTGAAAGGTGGGAACACTACAGAGGCCATGGAGGACTTCACGGGAGGAGTGACAGAGTTTTTTGAAATCAAGGATGCTCCCAGAGACATGTACAAGATCATGAAGAAAGCCATCGAGAGGGGTTCCCTCATGGGCTGCTCCATTGAT
Seq A exon
GTAAGTCTGCAGTATGGGGTGCAGGACAGGGAGCTGCCTGTTACTGGGAAGACTTACCCAGTGAACAGGAGCACAGGGCTTTCCTCTGGGGCAGGGTGAACGTTCTGTTTTAGGAAGCAGAAAAGTAGCTCTCAACTTTGAAAACTGGGAATTTCTCAAGGGAGAAGTTTCTGGAGGTTTTCAATAAAGATGCAAAAATTTAGGTGGAAATAGGCCTCCGGGGCTGGTGTTTCTCAGTTCCAGCATGCCCCTAATAAGCTGGCCACACACTGGGCTATGGACCTGAACCTACCAGTTCCCTAAGAAAGCCTCCCAGTCATTGAGCTTTGATCAGATCTCACATGTGGGACCCAGGCTTTGTGTTGTACTCTGGGAGAAGCTCAGCCTGCAGTCCACCTCTCAGCGAAGTGGTGTGAACTGAGACCAGAGCCAAGGGCAAGGGGATGGCAGACTGGCCAGGAGATACACCCTCCCTGGGGAGTAGTCAATGTATTCTAACAGTCTTGGTTATCTCTGTTGGTGAGGAAGGGGCCCAAGCTGAATTCCTGTTCCTTCCTCTCCTAGTATACCCAGTAGATGGGAAAGCTTGGGAAGATGAAGCACCCATGGACAAACGTTTTCTTTCTGCATCACTGTTATCCATCTTTTCTCCATTCATGCTCTACTTATCTCTCCTCTGTTTCTTTGTCTGTCCCCTCCCTTCTTTCTCTCTCCTTCCCTTTCTATCACCCTCCTTTGTTACTCTCTCTCCCTCTCCTGGACTGTCCCCTGCCCTCCCTGTTGGGCCTCAG
Seq C2 exon
GATGGCACAAACATGACCTATGGAACCTCTCCTTCTGGGCTGAAAATGGGGGAGTTGATTGAGCGGATGGTGAGGAATATGGATAACTCGCGGCTCAGGGACTCAGACCTCATCCCTGAGGGATGCTCAGATGACAGACCAACTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008868:ENSBTAT00000011677:5
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=0.204
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(27.5=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(4.4=18.4),PF0064816=Peptidase_C2=PU(30.4=91.8)
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:
ATGAAGCCCTGAAAGGTGGGA
R:
CCGAGTTGGTCTGTCATCTGA
Band lengths:
302-1093
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development