BtaINT0031380 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008868 | CAPN3
Description
Bos taurus calpain 3, (p94) (CAPN3), mRNA. [Source:RefSeq mRNA;Acc:NM_174260]
Coordinates
chr10:37883231-37883448:+
Coord C1 exon
chr10:37883231-37883288
Coord A exon
chr10:37883289-37883383
Coord C2 exon
chr10:37883384-37883448
Length
95 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGC
5' ss Score
6.06
3' ss Seq
CTCTTCTCCATACTTCTCAGATA
3' ss Score
8.78
Exon sequences
Seq C1 exon
GACATGGAGATCTGCGCAGATGAGCTCAAGAACGTCCTTAACAGAGTTGTGAACAAAC
Seq A exon
GTGAGCAGCTTAATTCTGCAGGGGCAGGTGGGCAGTTGGGCAGTGTGTGTCCAGCTATCTGAAGGCAGCTCCTCACTCTTCTCCATACTTCTCAG
Seq C2 exon
ATAAGGACCTGAAGACACAAGGCTTCACGCTGGAGTCCTGCCGTAGCATGATTGCTCTCATGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008868:ENSBTAT00000011677:18
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:
PF138331=EF-hand_8=FE(31.1=100)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=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:
GACATGGAGATCTGCGCAGA
R:
TGCTACGGCAGGACTCCAG
Band lengths:
106-201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development