BtaINT0031368 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012778 | CAPN2
Description
Bos taurus calpain 2, (m/II) large subunit (CAPN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001103086]
Coordinates
chr16:27818481-27819847:+
Coord C1 exon
chr16:27818481-27818566
Coord A exon
chr16:27818567-27819772
Coord C2 exon
chr16:27819773-27819847
Length
1206 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
CCCATCGCTTGGTTTTCCAGCTG
3' ss Score
8.47
Exon sequences
Seq C1 exon
GTGGAAAGCAGAGGAAGCCTGCAGAAGCTGATCCGCATCCGGAATCCCTGGGGAGAGGTGGAGTGGACCGGGCAGTGGAATGACAA
Seq A exon
GTGAGGAGGGTGGTGGGGGTCTGGGTGGGGGGCGTCCGGCCAGGAAGCTCTGGGAGGGGAGCTAAGGAGAGCACGCACGGCGGCTGTGCTGAGAATAAAGTCCCAGAGCACAGGGTTCCCCCACCCCGAGTGGGACCCATGGGGCTGGTGGCCCCTCAGGACTCTTAACCACAACACTCCAGCCACCTGGCTGCCTTTCAAGGCCCAAGCTCCCGGGATGCTCATCCTTTCATCAGCTCATGGTCCACCCCTTCGCTGGCTCAAAGTCACTCTGCTATTGGATCTTCAGAGAAAATACACACCTTTCCTCCTTCAAGCACTCGTTCTATCCCAAGGATGTAAACGTTGTGCCAATAGAAGTCCTCTGTTGATGTCCAGGGTTCTTGGTTGGCCTGTTCAACCTTCAGCTCTAGGGTGAAATCTCCCATGAGCCCCTCTCCTGGTCTTCCTCTGCTCCTATCTCCCCGTCCTCCTCCACAGCCCAGCAGCTACAATTCCACCTTTTCCCTGGCCAATTCCCAGGCAGCCTCTGCTTTGGCAGAGAGACACCCGCCAGGGCCCGCAGGTCAGCTGCAGAGGCCAAGATGAGCACCCCCTCCCCCCTCCATTGGATTTCTGCTGCTGCTGCTGCTAAGTCGCTTCAGTTGTGTCTGACTCTGTGCGACCCCATAGACGGCAGCCCACCAGGCTCCGCTGTCCCTGGGATTCTCCAGGCCAGAACAGTGGAGTGGGTTGCCATTTCCTTCTCCAATGAATGAAAGTGAAAAATAAAAGCGAAGTCGCTCAGTCATGTCCGACTCTAGCGACCCCATGGACTGCAGCCTAGCAGGCTCCTCCGTCCATGGGATTTTCTAGGCAAAAGTACTGGACTGGGGTGCTATTGCCTTCTCTGATTGGATTTCTAGTCACCCCTTAAAAGAGCTGCCAAGCCCTTCTCAGTTTGGGTCACTGATGCTACTTCCTGTCTATCCAATGGGCTGTGTTCATTCTTTGGAATCTTCCTTGCCCCCATCTTCCAGGATAAGGTATCCTCTCACCCTACTGCCCTGCACCTCTCAGCCACCTGGGTGTCACTTCCCTTCCTTACTGGGGTCTGGGCCCTCAGATGAGAGAACGTGTCCCTGGTCCTCAAATTTGGAGCAACTTGGGGAGAAGTCATTGCTCCACACTAGTTTCTAATGTCTGTCCCATCGCTTGGTTTTCCAG
Seq C2 exon
CTGCCCAAACTGGAACACAGTCGACCCCGAGGTGAGGGAAACGCTGACTAGACAGCATGAGGATGGGGAATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012778:ENSBTAT00000047532:7
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=0.269
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.3=100)
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:
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