BtaINT0031238 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44086234-44086436:+
Coord C1 exon
chr29:44086234-44086299
Coord A exon
chr29:44086300-44086378
Coord C2 exon
chr29:44086379-44086436
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
CATCCTCCATCTCCCCCCAGGAC
3' ss Score
12.33
Exon sequences
Seq C1 exon
CAAGTGCTCTCAGAAGAGGAGATTGATGAGAACTTCAAGTCCCTCTTCAGACAACTGGCAGGGGAG
Seq A exon
GTAGGCTGGGCCTGGTGGCGGGTGTCTGGGGCACTGAGGGGTTTCCCCAGGGCAGGTGCCATCCTCCATCTCCCCCCAG
Seq C2 exon
GACATGGAGATCAGCGTCAAGGAGCTGCGGACCATCCTCAACAGGATCATCAGCAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=100)
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:
TCTCAGAAGAGGAGATTGATGAGA
R:
TTGCTGATGATCCTGTTGAGG
Band lengths:
115-194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]