BtaINT0031331 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015865 | CAPN14
Description
Bos taurus calpain 14 (CAPN14), mRNA. [Source:RefSeq mRNA;Acc:NM_001192425]
Coordinates
chr11:68688096-68689655:+
Coord C1 exon
chr11:68688096-68688366
Coord A exon
chr11:68688367-68689585
Coord C2 exon
chr11:68689586-68689655
Length
1219 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
ATTTCTGTCTGTTCCTGCAGGAG
3' ss Score
11.79
Exon sequences
Seq C1 exon
GTGCGGAGACCGTCCAGAGGGCCCTGGGGTCTGTGTGGTCCCGGCCATGGCCATGTGTTTTCCTATCTGCAGATACTGGAAGCTGGGGTGTAAGGACTCAATGGGCGACTTTTCGCAGCTCCCCAGACAGGACTACGAGGCCCTGAAGGAAAGGTGCCTGAGGGACGGCTGTCTCTTTGAGGACAAGAGCTTCCCGGCCGCCCTGAGCTCCATCGGCAGTGGGCCCCTGCTGCGGAAGCTGCCGAGCCGCCTGCAGTGGAGGCGGCCTCCG
Seq A exon
GTAAGGGGCCTCGGGACCCCACGTGCGCAGTGTGCACCCAGACCGTCTTCCCAGGGCTCAGGGCTTACTCAGTGTCGTTGATCCCCATGTGAAGGGCTCCAGAGAAGTCCCCACATTCCCATTTTCCAGAGAAAATCCAGGGTGATCCTGAAAGGGGTCTAAGCACTCCCTTACCCCCTGCCCTGAAGTACACGGAACAGTCGTGTACTTCACCAGAAGTGTACCAGAAATATATCTCAATGTACTGCTTGGGTCCATCTGACTGACCAATACCATCTGTCAGAGAGGAAGTTTAATACTCCCCTCCCCAAATCTGGCTGATGAAACACCTAGGTGAAGAAGCTACTAATCACTTTACAAAAGTCTTCTCTTTGTGAAATGCATCAACAGTTCCTTTAAAAGGCAACTTCTTAATGTGTTGAAAGGCAACCAGCTCCCCCAAAATTGGTTAACAAGTTGAAGATGGCTGGTGAAAGGAACGAAGTTACTCTGGGCTCCAAATCCTCCCCTTTTCTGTCCCCTATCAGCCAACCCCATCAAAGCCTACAACCCCAGACTTACCAAGTCCCTCTGTGTGTAAATTCCCCAGTAAACCTCCTACACTAGATGATAGCAAAAACTCTCCTTCTCCTAGAGAATCTAGGGAATTGCTGAGGTAGCGAGTCTGTTATGTACCTGACTTTGTGATGTGGTGCCCAGGTCTCCCGTTTGCTGGGAGACCTTGTGGAAGGGTGCCCAGGAAAAGACAGAGGGATTTAGGGTGTGCCGTGGAGCAGAGACCATCCCCCACTCTCCCCTTGACCCCACCCCTGCCTCCATCTCAGCATGGAAGCCAAAGAGACAGGTTAGACTGGGGGTTGGGGGTGGGAAGGAAGAGTAGCAAGGAGAATAATGGGAATGAGAAGATCTCTAGGAAAAATGAGAACACCCCAGAAAACAGATGCTTCCATTTGTCACAGGTACTCCAAGAAAAGGCCTTCTAGGGACAAGTGCTACTTCTCACTATCTACCCCGGGTTCTCTAGCACTCTGACTTAACACAAGCAGCAAGAAGGAATGAGAAATACAGTGGGGAGAATCCTGAAATAGCCCTGATTTCACACATGTTCTGTATCTGTGTGCCCAGAAGTCTAGTTCGGGGACATGGGAAACTATGGTCACTGTAGCTCCAGGGGCTTCTTTGTTCTCCATCAGAAGGATATTTCTGTCTGTTCCTGCAG
Seq C2 exon
GAGCTGCACAGCAACCCCCTTTTCTACTCTGCCAAGGCCAAACGGCTGGATCTGTGCCAGGGATTGGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015865:ENSBTAT00000021091:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(10.9=42.7)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(7.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACCGTCCAGAGGGC
R:
TGGCACAGATCCAGCCGTTT
Band lengths:
326-1545
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development