BtaINT0031289 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013239 | CAPN12
Description
Bos taurus calpain 12 (CAPN12), mRNA. [Source:RefSeq mRNA;Acc:NM_001192697]
Coordinates
chr18:48743705-48743977:-
Coord C1 exon
chr18:48743861-48743977
Coord A exon
chr18:48743764-48743860
Coord C2 exon
chr18:48743705-48743763
Length
97 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
CCTCACCCCTCTCTGCACAGGCT
3' ss Score
9.23
Exon sequences
Seq C1 exon
GCTTCCACCTGAACAACCAGCTGACCCAGGCTCTCACGAGCCGATACCGTGACAGCCGCCTGCGTGTGGACTTTGAGCGCTTCGTGTCCTGCATGGCCCAGCTCATCTGCGTCTTCC
Seq A exon
GTGAGTGCCCTCCCCGGCGCCGATGGGGCAAAAGGAGGTGGTCTCCGCAGCTGCGGGACCAGGGAGGTGGGCCCTCACCTCACCCCTCTCTGCACAG
Seq C2 exon
GCTACTGCAGCCAGCACCTGGATGGGGGCGAGGGGGTCGTCTGCCTGACCCACAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013239:ENSBTAT00000044705:19
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:
PF134051=EF-hand_6=PD(6.2=5.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCACCTGAACAACCAGCTG
R:
GTCTGTGGGTCAGGCAGAC
Band lengths:
172-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development