BtaINT0031241 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010230 | CAPN1
Description
Bos taurus calpain 1, (mu/I) large subunit (CAPN1), mRNA. [Source:RefSeq mRNA;Acc:NM_174259]
Coordinates
chr29:44088188-44089195:+
Coord C1 exon
chr29:44088188-44088266
Coord A exon
chr29:44088267-44089078
Coord C2 exon
chr29:44089079-44089195
Length
812 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CACCTGCTCTCCTGGGCCAGGCT
3' ss Score
5.75
Exon sequences
Seq C1 exon
TCCATCTTCCGGAAGTTTGACCTGGACAAGTCGGGCAGCATGAGTGCCTATGAAATGCGGATGGCCATTGAGTTTGCAG
Seq A exon
GTGAGGCCTGAGGGCGGGCAGGACCTGTGGAGCCCCCAGGGAGATGGCCCGGGTTGCTTCCCTGACAGCTCCCAGGGCAGTGGCCCACCCATGGGGCCTTGTCAGTGGGTGGGGTGGGGTTGTTGATGGCAGTGGTGGTGAAGTGATAACAAACAGCCATCTACTGCCTTTTTCTCCTGGTAACCGTTAGCATTTCCTCTTGTCCTCACTAGACTTCCCTGGTGGCTCAGAGGTTAAAGCGTCTGCCCGTAATGCGGGAGACGTGGGTTCGATCCCTGAGTTGGGAAGATCCCCTGGAGAAGGAAATGGCAACCCACCCCAGTACTTTTGCCTGGAGAATCCCTTAGACAGAGAAGCCTGATAGTCTACAGTCCATGGGGTCGCAAAGAGTCAGACACAACTTAGCGACTTCACTTCACTCACTTCACTTTGTTTCACTGCAGCCTGCGAGGATAGGGTCTTTTATTATCCCATTGAGCACAGAGAAAAGTGTCTCCTCAGAGAGGGGAAGTGACTGGCCTGGAGCCACACAGCCAGGGAGAAGCGCAGCCAGCCTCCAGGGCCTCCAATGGGAGCTGTGCAGGGCTCACCCTCACAGTCCCACTTCAGGATGAGGCCAGGGCTTTCCGAACAGATGAAACTGGACCTGTGGGCCTGATGGCCAGCTCCTGGGTGGGTCGTTCTGGGTCCTCAAGCTTTCTCTGGGCCAGCACTTGCCCAGGACTGCCTCCCCCCATGGCGGGGCTCACTCTGCCCAGCCTTCCGTCCCCCTTCCCGCACCTCCCGGGGCCTCACCTGCTCTCCTGGGCCAG
Seq C2 exon
GCTTCAAGCTCAACAAGAAGCTGTACGAGCTCATTATCACCCGCTACTCGGAGCCCGACCTGGCCGTGGACTTCGACAACTTCGTGTGCTGCCTGGTGCGGCTGGAGACCATGTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010230:ENSBTAT00000011678:18
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:
PF134991=EF-hand_7=FE(28.6=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(42.9=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:
CTTCCGGAAGTTTGACCTGGA
R:
GAACATGGTCTCCAGCCGC
Band lengths:
190-1002
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]