BtaINT0031243 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44064850-44065296:+
Coord C1 exon
chr29:44064850-44064919
Coord A exon
chr29:44064920-44065177
Coord C2 exon
chr29:44065178-44065296
Length
258 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGC
5' ss Score
6.03
3' ss Seq
GGGGATCCTTCCCATCCCAGGGG
3' ss Score
6.26
Exon sequences
Seq C1 exon
GAGCTGTTCTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGCACGGACATCTGCCAGGGCGCACTGG
Seq A exon
GTAGGCCCTGGGGGATCCCGAGTGTGTTTTGCGTAGTAGTTCCCTGTGCCCGTTCCTTCCTGCTCCGCCTCAGCCTCTCCCTCCTGCAAGCCCGAGCAGGCTCTGGCTCTCAGTGCTGGGGCTGGTTTGCCCAGATTCCTGGGTCTTTTCTGTAAGTTGAGGGGCACCCTGTCCGGGGAGTCCCAGGTTCTCCCCAGTATGGCACTCACTGGGCAAAGATGGGTACAGTAGACCTGACGGGGATCCTTCCCATCCCAG
Seq C2 exon
GGGACTGTTGGCTCCTGGCTGCCATCGCCTCCCTTACCCTCAATGACACCCTCCTGCACCGAGTAGTTCCACATGGCCAAAGCTTCCAGGATGGCTACGCTGGCATCTTCCATTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:2
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(7.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(13.0=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:
GAGCTGTTCTCAAACCCCCAG
R:
TGGAAATGGAAGATGCCAGCG
Band lengths:
188-446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]