BtaINT0031281 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013239 | CAPN12
Description
Bos taurus calpain 12 (CAPN12), mRNA. [Source:RefSeq mRNA;Acc:NM_001192697]
Coordinates
chr18:48749377-48749794:-
Coord C1 exon
chr18:48749783-48749794
Coord A exon
chr18:48749586-48749782
Coord C2 exon
chr18:48749377-48749585
Length
197 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
CGCTGCCTTATCCCCCCCAGCTA
3' ss Score
7.33
Exon sequences
Seq C1 exon
ATCCCAGAGGAG
Seq A exon
GTGGGTATCAGAAAAGACCCCAGATTCCATCCATCCCTGAACCAGCCCCAGCGGCTCCTACAACCTGGGGGCCTGAGGCGCGCTTGGGGTGATCGGTGACCAGTGGGTTTGTCCAGGGCGGTGTGGAGGGTGCAGTGGGTCGGAGGTCGGATGGGGTGAACTGGACGGTGGTGGTCACGCTGCCTTATCCCCCCCAG
Seq C2 exon
CTACTGGGCCTGTGGGACTCCCCGAGGAGTCGCGCGCATTTGTCCGGCCTGCTGCGCGCCGACCGCTCACCATTCTGCGCCCGCCGCGACGTGAGCCGCCGCTGCCGCCTGCGCCCGGGCCACTACCTGGTGGTGCCCAGCGCCGCCCGTGCCGGCGATGAGGCCGACTTTACGCTGCGCGTGTTCTCTGAGCGCCGCCACACTGCCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013239:ENSBTAT00000044705:11
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:
PF0106717=Calpain_III=FE(1.7=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(39.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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