BtaINT0031369 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012778 | CAPN2
Description
Bos taurus calpain 2, (m/II) large subunit (CAPN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001103086]
Coordinates
chr16:27819773-27820713:+
Coord C1 exon
chr16:27819773-27819847
Coord A exon
chr16:27819848-27820552
Coord C2 exon
chr16:27820553-27820713
Length
705 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
ATGAGTCCTTGCTTTTGCAGGAT
3' ss Score
10.01
Exon sequences
Seq C1 exon
CTGCCCAAACTGGAACACAGTCGACCCCGAGGTGAGGGAAACGCTGACTAGACAGCATGAGGATGGGGAATTCTG
Seq A exon
GTAAGATTCTTGGGCTTTAAGAAAAAAGGTGACTGATCTTTACTCAAAATTGAGTGAGATTATTGTGTGGAGGGCACAGGAGTGTGGGATCAGGGTTTTGTTGTTTTAAATTCACTGTAAGACCTTGAACAAAAAAGTTCCTGAACCTCTTCAATTTATCCATCTCAACAATTGGGTTTCAAAGCTGAGCAGCTGAGCAGAGAAGGCTATGAATTCCTGCAGGAGTGTTCAGGTCCTGAGAACATGAGAAAAAGAGGGGAAAGATGGACTTCACTCCTAACAAGTTCCTAGAGAATCTTCCCAAGGCCTCAAGAAACAGGTCCCTGGGAGAACAGGGATGGGCCTGGGCATCTGTGTCTGTGCTGCTCTGAGACCACCCACATCTGTACAGTCCTGGCATCTTACCAACTGAGTGTCCATATTTTGTCTCATTTGATACTCGTGTCTCCTTTGACACCCCCGTTTCTACAGATGAGAGTTCTGAGTTTCAGAGAGGCTTAGGTAACTTGTTCAAGATTACCAGCTGGAAGGTGGCAGCACCAGGACCGGAACCGGCGCCGTCTGATGGCTGACCTAGTGGCCATGCGGCCCTGATATGCTGTCCACTGGCTGCCCTAACTGCATCCTAGTCTGGCCTTGGGTGGAAGGTCCAGGCTTGCCAGTACATCTTCTGGCAGCCTGGGTCATGAGTCCTTGCTTTTGCAG
Seq C2 exon
GATGTCTTTCAACGACTTCCTGAGACACTATTCCCGCCTGGAAATCTGCAACCTGACCCCTGACACACTCACCAGTGACAGCTACAAGAAGTGGAAACTCACCAAGATGGATGGGAACTGGAGGCGGGGCTCCACCGCGGGCGGCTGCAGGAACTACCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012778:ENSBTAT00000047532:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.269 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.4=43.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCCAAACTGGAACACA
R:
TCGGGTAGTTCCTGCAGCC
Band lengths:
236-941
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development