BtaINT0031384 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008868 | CAPN3
Description
Bos taurus calpain 3, (p94) (CAPN3), mRNA. [Source:RefSeq mRNA;Acc:NM_174260]
Coordinates
chr10:37884092-37884495:+
Coord C1 exon
chr10:37884092-37884170
Coord A exon
chr10:37884171-37884378
Coord C2 exon
chr10:37884379-37884495
Length
208 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TCCTGTGCTCTCCCCAACAGGCT
3' ss Score
11.41
Exon sequences
Seq C1 exon
AAAATTTTCAAACACTATGACACAGACCAATCTGGCACCATCAACAGCTACGAGATGCGCAATGCAGTCAAAGATGCAG
Seq A exon
GTATGGGGAAGAAATGGGGTGGCCAGGATGCAGATGGGAGGTGGAAGGAGCAGGGATGAGAGGGGAGGACTGGGCCACTGGGGCCCTACCAGAGAAAGGGCTTCTTGTTCTCCTCTCCTAGGCCACAGTGTGACAAGGAGGTTCTAAGGAGAAAGCAAGCAGGCCTGAGGACTCACCCCCATCTCCTCTCCTGTGCTCTCCCCAACAG
Seq C2 exon
GCTTCCACCTCAACAACCAGCTCTACGATATCATTACCATGCGCTATGCAGACAAGTACATGAATATTGACTTCGACAGTTTCATCTGCTGCTTTGTCAGGCTGGAGGGCATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008868:ENSBTAT00000011677:21
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(27.4=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(41.1=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:
TCAAACACTATGACACAGACCA
R:
GAACATGCCCTCCAGCCTGA
Band lengths:
188-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development