BtaINT0031353 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012778 | CAPN2
Description
Bos taurus calpain 2, (m/II) large subunit (CAPN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001103086]
Coordinates
chr16:27824380-27825789:+
Coord C1 exon
chr16:27824380-27824391
Coord A exon
chr16:27824392-27825577
Coord C2 exon
chr16:27825578-27825789
Length
1186 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
TGCTCCTCTTTCTTCACCAGTTG
3' ss Score
9.13
Exon sequences
Seq C1 exon
GTTCCAGAGGAG
Seq A exon
GTACGTCTGGCACGCGACAGCCCCCATCCTTGGGGCTCAGGTTCACCAACAAGGAAAAGGCTTAGACTGCTGGCTCTGGGGTCTCGTGAAGTCTGGGCAGGGGCTCATGTCTATGAAGAGTGAATGCCCACCCCCGCCCCCTGAGCCCTGGTGAGGTTGCTCAGGTCCTAGGTCTCACGGTCTAAGCACATGGGGAGGGGTCCGGGACAGTCCCCATGGAACGTACTTTCTCCCTGAGGCCCGCAGAGTCAGACACATTTAGTCCTGGGTGGAGGTTCGTTGGTCCTGGAACTGCAGGAGACTCTTCTCAAGAGTCCTGTAGTGCTCCTAAAACAGGCTAGAGGGACTTCCCTGGCTGTCCAGTGGTTAGAACTCTGCACTGCCAGTGCAGGGGGCGCAAGTTCAATCCCTGGTCAGGGAACTAAGATCCCACCTGCCTCATGGCATGACCAAAACAAAAAAATTGGCCTAAAGAGAAATGATGAGCCCTACAAGTGGTATTATAAGGAGATGGGGGGACATAGCAAGAGACCTGGACCCCGTTCCCAGCTCTGCCACCTGCAGGCTGTGTGACCTTGGACAATTTACTTGCCCTATCTGAACTTCAGTTTCTTTGTCAGTAAAACTGACCAACCATCCCCCTTACCAGATCGTTGGGATGCATTGAGATACGTGAGAGCACTTAACAGGCCCACAGTCAGGCTTCACTGAGCTGGTGAGATGCACAGTTGCGGTGTGTGTCTTTAAAGGCCACGGTTGGTTATTCAAGTCAACACAAACGAGGCAGAGCAGCTGGTAGCGTCCTGGGTCTTTGTGGATGCTGTGGACAGACTGACACCCCAGGTTTGGGAGCTGGGACCCCTCCTCACCTGTCTGCTTGTGTCAGTGTGTCTACACCACACAGAACCGAGCGGATCCCAGCCACGGGGACTCTGATATCCCCGAGTCATTGCAGCAAGGCTGAGGACCTCTGTCTGAGCGAAGAGATGGGGTGTCTGCAGACAGTGGGTGAATGTAGGTCCCCTCTTACGTGTGTCTCTGAGCTGCTGTTTGGGCTGAAAGGTTTGCTTTTTATCTGTGACGCTCCAGCCTTATGGCTGTGATCCTCTTACCCCAAGGAGTGGAGAGGGCAGTGCTTGGAGCCCTTCCCTCCATCCACTCCCACATGCTCCTCTTTCTTCACCAG
Seq C2 exon
TTGACTGGACAGACCAACATCCACCTCAGCAAAAAATTCTTCCTGACAACCAGAGCGCGGGAGCGGTCGGACACCTTCATCAACCTGCGGGAGGTGCTCAACCGCTTCAAGCTGCCCCCCGGGGAGTACATCGTGGTGCCCTCCACCTTCGAGCCCAACAAGGACGGCGACTTCTGCATCCGGGTCTTTTCCGAGAAGAAAGCCGACTACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012778:ENSBTAT00000047532:11
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(1.9=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(44.9=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