BtaINT0031385 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008868 | CAPN3
Description
Bos taurus calpain 3, (p94) (CAPN3), mRNA. [Source:RefSeq mRNA;Acc:NM_174260]
Coordinates
chr10:37884379-37884867:+
Coord C1 exon
chr10:37884379-37884495
Coord A exon
chr10:37884496-37884808
Coord C2 exon
chr10:37884809-37884867
Length
313 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
CTATGCATTCTTCCGAGCAGGAG
3' ss Score
5.62
Exon sequences
Seq C1 exon
GCTTCCACCTCAACAACCAGCTCTACGATATCATTACCATGCGCTATGCAGACAAGTACATGAATATTGACTTCGACAGTTTCATCTGCTGCTTTGTCAGGCTGGAGGGCATGTTCA
Seq A exon
GTAAGTGGACAGCTACCCTTCTGCTTTCTTAGGCCCTTCCTGCTCCCTCTCCTATGGTGGAGGGAATCTCCACTAACTGACCTTACTATATGACCCTGGACAAACCCATCTACTGTTCAGGCTGAACAAAGGTGAAGAGGCCCTCTTTAGGCTCAGAATGGGATGGCAAGGGGCAGTTATTGGTGATATTTTGGCCTATTTTGGTGCTGAAGGGCAGCACCGGGCACATGGTCCTCTTAAGAAAAGGTGGAGTGGTCGGGGGTGGGGGGGAGCACCTGTAACTGGCCTCTGGTCTATGCATTCTTCCGAGCAG
Seq C2 exon
GAGCTTTCAATGCATTTGACAAGGATGGGGACGGTATCATCAAACTCAATGTTCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008868:ENSBTAT00000011677:22
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(41.1=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(20.0=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]
SPECIAL DATASETS
- Pre-implantation embryo development