BtaINT0031377 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008868 | CAPN3
Description
Bos taurus calpain 3, (p94) (CAPN3), mRNA. [Source:RefSeq mRNA;Acc:NM_174260]
Coordinates
chr10:37878425-37881818:+
Coord C1 exon
chr10:37878425-37878442
Coord A exon
chr10:37878443-37881704
Coord C2 exon
chr10:37881705-37881818
Length
3262 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CACTCCCCTCTTCTCTCCAGCCC
3' ss Score
7.93
Exon sequences
Seq C1 exon
AAAAAGAAAAAAAACAAG
Seq A exon
GTGGGTGTAACAGGGTGAGTGGGCACACAGTGTGTGTAAGAGTGAGCATGTGTGCACTGGACCTGCCTCCTCTCCCCAGCCCTCCACCTCCTTCCCTGAGCTCCTCTGGCAGCTATGGGTACAGAGCACTGATAGCTTATACTTGCCGAGTGGAGGCTATGAGCCAGCCACTCTTGTAGGTGCTTTCCGTGGATTCTCTCCATCCTCACAACAACTCTATGAGATTGGTACACGCAGAACTCAGAGAGATTGTGGGTTCAGTTCCAGAACACTGCAAAAAAGCGAGTATCAGAATAAACCAAGTCACAGGAAGTTTTTGGTTTTCCAGTGCATATGAAAGTTTTGTCTGCACTATACTATAGTCTATTAAGTGTGAAATAGCATTAATACTAAAGAAAAAAAGTATGTGCCTTAATTAAAAATACTTTATTGCTAAAAAATGCTGATCATCATCTGAGCCTTCAGCAAGTTGTAGTAATAACATCAAAGAATACTGACTGCATATCACCATAAGATAGTAATGAGAAAGTTTGAAATATCGTAAGAATTACCAAAATGTGACACAGACACAAAGCACACAATGCTGTTCAGAAAATGGCACTGGTTAGACTTACTCAAGATGGAATTGCCACAAACTTTCAGTTTGTAAAAAATGCAGTATCTGCGAAGCATGATAAAGCAAGGGATGCCTGTACTATGATTACCTTCATTTTCAGAGGAAGGAAAGGTACAGACAGATTGACCAACATGCCCAAGACCACACAGCCAGTGGCAGAGTCACCCTGGAACCAGGAGGTCTGGCTCCGCAGTCTGTGCTCTGAACCACCACACTTTACTGCCTGCTTAGAAGAGAAAGGGAGGACGGCCAACCAGTGAAAATGGGCCTGACATGGGGGTCCTGCAAAAACCCACAGGAGAACCTCTTCTTTCTCAGAAGTGGGTGTGACTAAGCTAAGCTCAGACTTGATTCTTGCAGGAATGGCAACGGGCCTTGGTCCTCAGGGAGCAGTGACAGAGTTGTGTGAGGATTTCCATGTCAGTGCGGGGGAGGGCCTTGTCTTCTGACACCAGTGCCTGCTCTGCAGACAGGACAACTCCTTCCTCCTGTTTTCCCTGCCTGCTCCCTACTCCTTTTTCCTTAGCCTTCTGGGGAAGGGGGTGGCAGAGGACACCCAGAGTGGCTGTCACTGCTAGGGCTCTCATTCCAGGTGAAGCAGGTTGCCAACTCCCTCCTAGATAGTGACCTCTCTCTCTGAACTAAGCCCCTCAAAGTCATGGGCCCTGATGGACTCTGCTTGCTGTGCATGTCCAGATGGGGAAGGGGAGAGGGGAAGCGAAGCTTCACATGCGTGGCCCCAGAGGAGCTGCTCAACTTGACTGGTTTCAGGGGGAAAGATAAGGAGAGCTACCTGGGGAGCTTGCCCTCCTGGGTGTCCTGGTTAAGACCACTGTGCTGCAGGGACATCATCACTAAAGCTAACCATGCATGCTAAGAGCATCTCAGGGGCCTCAGAGGAAAGCTTTTATGTGTAATTTTGGAACTCGAGATTACAATCAACCCCATCCTTGCTCCTTTCACCTGATAACTTCCCCCGTGGTCTCCAGGGCAGTAATGCCTACAATAATGTTACCCCTTTTACAACTTTGGTTTGACCACCCAGAGTGCCATCCAGAAATGACTGACCTTTGGGCATCCTCACACCAATGGAGGAATAGCCAAAGGCCATCAGACAAGGTTTGGTGTTAGTGTTCATGACAGCATCTGGAAAGATCCATCATAGGGGTCCTCCAAGCTAGTGCAGACCAGAGCTGACATTCACCAAGCACCAACTGCATATTCAGGCCCTGTGCTGGGGGTAAAATATACATTGTGTTCAGTTACAACAGTGTCTACAAGGTAGGTGCTGTCGGGATCCCTCTTTTATAGACGATAAAGATTCAGAAGTCCTTGTCTGAGGACACACCACTAATGAGTGGGGAAACTTGAACTGGAAACCATATTTGTTCTGAACCCATGTTTCTTGCCCTCAGCTCTCTGGTACCGGACCTTTACACTCCATGGCCTGTGTGGCCCAGACCCATGCTTGGGCCCCAAGTTGTGTGCCTGGTAGGGATGCCCCATGGTCACACTTCCCCCCTCAGACTGCTAGCCACACTTGCTCTGAGATTCCCTACAGGTATCAGTTACTTGAACAAGACCCCTTTCTTGGAAAGAAGAGCAAGCCAAGGTATTTGGGGCCTGCTGGGAGCCAAAGCTGGGGAAGCTCTCTCCATGGTCTGTCCATTCGTGCTGCCCTAGAGGAACAGTATGGAAAAGCAAATGGGAACTCAAGAGTGCTCAGGAACTCTTATGCACTGAGAGATTTTGCTTGTCCCCTTGTTCTCTGCACCGCTAACAGGAGCCTTGCCTTCCTCCTCCGGCTTTCTCAATGGGATGTATACCCCAACCAGTGCCACCACAGCATGGCAGCCGCTTTCCACCCTTTCACATTCTCCTCACTTGCATGAGCATGTCTGACAAATACCCCTTATATTTGGGCATCATCTTAAATGTTTTTCCAGTACAATTATACATTCAGTAACTGTGTGATCCCCACAAGAGCCCCATGAAAAGGGCAAAGCAGTTTTTATCATCCCCATTAATGGACGAGTAAACTCAGGCCAGAGGATATTTTTCATATGTGAGGGGCATGGCTGCGACTCCAGTCAAGTATTCTGACCCAACTCAGTGACCATGTAGATAATCAGTTCTTTCCTCAATGTGTCCTCTGCCAAGTCCTAGAGGTTCCTTGGAGAAGCCTTAGTAGCTGCCATGGTGATGTGGGGGTGTCAAGGGAAAAGAGCTCTGCCCTCTTCATTAAGCAGAGAAGCTCAGTTTTTAGAGCATCTGGGGGAATTTAATTTGAACAAGGTTTCCATTTGAAAAAAAAAAATCTACAAAATACTTGAAAATCACTGCACTATACCATGCTGCTTTTAGGATTCTTAGCATTTTCACATGTACTAACTACCATGTTTAATCCTCATAACTCTACAAGGAGATAAGAAACTTAGGTCCAGAGAGATCAAGCATCTTTCCTCAAGTCACACAGCTTGTTAGTGGCAGAGATGGAGCTTGAACAGAGGTTCAGGAAGTCCCAGCTCTGCTCTTTCCCTCCTCACTGGACAAAGCTGCTCCAGGAGAGAGGTTGCTTCATGTGCCCACTCAGCCAGTAATCCTTGTTTCCTTCCTGCCCCCTCCCCACTCCCCTCTTCTCTCCAG
Seq C2 exon
CCCATCATCTTTGTTTCAGACCGAGCAAACAGCAACAAGGAGCTGGGTGTGGACCAGGAAACAGAGGAGGGAAAAGACAACACAAGCCCTGATAAGCAAGCAAAATCCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008868:ENSBTAT00000011677:15
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=0.763
Domain overlap (PFAM):
C1:
NO
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