BtaINT0031376 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008868 | CAPN3
Description
Bos taurus calpain 3, (p94) (CAPN3), mRNA. [Source:RefSeq mRNA;Acc:NM_174260]
Coordinates
chr10:37876436-37878442:+
Coord C1 exon
chr10:37876436-37876472
Coord A exon
chr10:37876473-37878424
Coord C2 exon
chr10:37878425-37878442
Length
1952 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TATTTTCTTTTCTTGTACAGAAA
3' ss Score
8.94
Exon sequences
Seq C1 exon
GGAAGTTGAGAATACAATCTCTGTGGATCGGCCAGTG
Seq A exon
GTGAGTGGTTTGGCTCTCACATGTGAAAAGGGCCAGGGAACAGGCGGGTGATGGAGGGGTAGCAGTGGGACACGGGAGTCTGGGGTGTGCAGAGCCATTACCCTGTGTTACTGCAACTTCTGCATGGCATGGCCTGAAGTCATGGGACTTGTGTCCTGGGGCCATTTAGTCAGTCTAGGGGCTGGAAGGACAGAGGAGAGTCCTAGAAGGAAAAGCAGTTTGAGCAATTAGAGGGAGGGACCAAGGCCACAGGAAGGGGTGACAACAGCTGCAGCCTGCACTGGATTTATGAGTTAGAATCTCACACAGAAAAAGCAGCACCACACCAGCTCTGGAGTCAGTGTCAAAACCCAGGTCCTCCACCTGCCAGCCTGGTGACCTAGACAAGTTATGTAACCCCTTCTGACTCAGTTTCCTACTCTGTAAAATAGGGGTGATATTAATAATACATGCCTCACAGGGCTTTGGTGAGGTTTGAATCGATGAGATCATGTACATGAAGGGTCTGGAATAGCACAGGCCCTTAAATGGCTATTGTTCATATGTTTTACATCTTCAGGGTACTTCTCACATGTGTCATCTCTCTGATCCTTGAAAGATTTATGACATGTAATAAGGTTATTATCCGTGGTTTTCAAGTAAGGAAGCAGAGGCTCAGTGGGTTAAGTGGATTAAGCAGAGGTTAAGTGGTTTCTTTGAGTTCACAAAGCTTGTAAGTGGCAAGGCTGGAACTCACAACCAGATTCTCTGAGTGGAGTCAGGCTCTCTCCCCCACCCCATGCCAAGGCCTGTCCCTGGGGATGGGAGGCCCGGGGTTAGAAGCAAAGGGCCGGTGTCTGCTGGAGTCTCCATGTAGAGGAGTTTTATGACTGCCTTGGACTTTGGGTTTTGGTGAATAAATAGTCCCTTGTGCTCTGCGGGTGTGTCCTGGGCCAATAAGAGGACAGCATAAATACCCCCACTGAATTGTCTTCTGGGTAGTGACACTCATGGTTCTAATCCCAACCCTGTGCTACTGGCAGATCCCCAAGGGCCTTTTGAATTAGCACAGACGTTGGTTTTAGTATTAAGTGCATTTGGTGCTATTCTTATCTTTTGGATGTCGGTAATCAGTGTAGCGTATTTATTAGGTGCAGCAAACTCAAAAGCTTACCTGAATTCATATGTCACCTAACGGAGCAGAGCAGGCACGTGTGAGGCTTTTGGTGTCCCTGTGCGGGTACAGTTGCTTGTGGTCCACTTGGCTTCAGACAACTGGAGTGATGGTGACTGTGGCAATCTGGGGATGCAGAGCAGCTGCTCTCAGCTCCTCAGATTGCTGTCACAGGGGGTCACAGATCCGTGCAGGCTGCCAGTAAAAGTGAAAGTGTTAGTCACTCAGTCGTGTCTGACTGTGTGCAACTCCACAGACTGTAGCCTGCCAGGCTTCTTTGTCCATGGAATTCTCTAGGCAAGAATACTGGAGTGAGTCACCATTTCCTTCCCCAGGGGATCTTCCCGATCCAGGGATCAGACCTGGGTATCCTGCATTGCAGGTGGACTCTATTGTCTGAGCCACCAGGAAAGCCCTGACCTTCTAATTTTAATGAAAAACCAAAAACTATAAATCAAATAAAATTCATTTTCAGGCCAGTTTAGGTGAGCCTACTTTTGGGGTGTTTTAGTAACCAACTTCATGAAAAAATACAAAACATCTGCCAGAAGCTCCCCTTCCTTGGCCACGACCAATGGCAGAATGGACTATAAAAGCAAAGCCGTATCAGCCCTGTGCCTGGGCCTGGAGAATTCTCTTCTCCCTATACCTTCCAGGCCCGTTTGGCTCCACATGACCCAGATTTATGAACCTCACCTGACACTGAGGACCAGGTTCACAGGGAAGCCAAAGGCCACTGGGCTTTCTGGGAACTTGCTTTTCACTTATCTTGCATTTATTATTTTCTTTTCTTGTACAG
Seq C2 exon
AAAAAGAAAAAAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008868:ENSBTAT00000011677:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.462 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
NO
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:
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