BtaINT0031237 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44085626-44086299:+
Coord C1 exon
chr29:44085626-44085665
Coord A exon
chr29:44085666-44086233
Coord C2 exon
chr29:44086234-44086299
Length
568 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
TCCCCACCTTCCCTCTCCAGCAA
3' ss Score
10.1
Exon sequences
Seq C1 exon
AGAGCTGGATGACCAGGTCCAGGCCAATCTCCCCGACGAG
Seq A exon
GTACGTGCCCTGCCCCCACCCTGGGTGCACGACGGGGACCCGGGTGTCCTGTGTCTTGGTCTCTAGCCAGCAAGGCAGAGCCCCTCCTGGCAGGAGCCATACACATCCCTCACTTGCCAAGCACTTTACAGTTTGCAAAGGACTTTGCGATCGATAGTAATGGCGCAGGGCCCCTGGGTTCTTGCTCTCTGCAGGGTCTGTGCTGAGCTGTTTACCTGGATCACCCGGTTTCCTCCATAACAACCGTGTCAGGGTGCTGTCACCGTCTCTCCTCTCAGAGGGAAACTCAGGTTCAGAGAGGTTAAGGAATTTACCCAAGGTCACGCAGCAGGGATCCAGGCTCACCCCTCATCATTGGGCTGTATTTCCACCTCCATATTTAGACCACAAGAGTTCTAGACAGGAATACAGTAGGGACTGGGTTCCCATTTTACAAATGAGGAGAGTGAGGCTCTGAAGTGAAGTGACACCTAGCTGATGAGTGCTCCCAGCCCCGCCTGCTGCTGCTGGCCACGCAGAGGCCAGGCTGGGGCGCCCCTGACCTGCTCTCCCCACCTTCCCTCTCCAG
Seq C2 exon
CAAGTGCTCTCAGAAGAGGAGATTGATGAGAACTTCAAGTCCCTCTTCAGACAACTGGCAGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=NA C2=0.045
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)
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]