BtaINT0031250 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44069046-44069409:+
Coord C1 exon
chr29:44069046-44069120
Coord A exon
chr29:44069121-44069248
Coord C2 exon
chr29:44069249-44069409
Length
128 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ACTCTCACCTCGACCCCCAGGAT
3' ss Score
7.3
Exon sequences
Seq C1 exon
CTCCTCGGAGTGGAACGGCGTGGACCCTTACATGCGGGAGCAGCTCCGGGTCAAGATGGAGGATGGGGAGTTCTG
Seq A exon
GTGAGCAGCCCCCTCCTCAGTCTGAGTGGGCACCCCAGCTCCCAACCCCACCCCCCTGAAAACCAGCTGTGCCATGTCTCTTGATGCCTCGACTGGGCATCCTGGTTCACTCTCACCTCGACCCCCAG
Seq C2 exon
GATGTCCTTCCGAGACTTCATGCGTGAATTCACCCGCCTGGAGATCTGCAACCTGACACCCGACGCGCTCAAGAGCCAGAGGTTCCGCAACTGGAACACCACCCTGTACGAGGGCACCTGGCGGCGGGGGAGCACCGCGGGGGGCTGCCGCAACTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:8
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=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.0=43.6)
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:
CCTCGGAGTGGAACGGCG
R:
CTGGGTAGTTGCGGCAGC
Band lengths:
234-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]