GgaINT0083307 @ galGal3
Intron Retention
Gene
ENSGALG00000009069 | CAPN14
Description
NA
Coordinates
chr3:7657374-7658988:+
Coord C1 exon
chr3:7657374-7657448
Coord A exon
chr3:7657449-7658824
Coord C2 exon
chr3:7658825-7658988
Length
1376 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACA
5' ss Score
4.6
3' ss Seq
TGGCACTCTTTTTTTCCCAGGAT
3' ss Score
8.24
Exon sequences
Seq C1 exon
CTCTTACAAGTGGGAGTTGCTGAGCCCAAAGGAGAAAATTCTGCTGAGGAAAAAGAAGGAAGATGGAGAGTTCTG
Seq A exon
GTAACAGCACTGTCTTGCCTCTCCTCTCTCTGATGGTAGCTCTGGGGCTGTGTCTGCAGACAAAGCAGTATTTTGCTTTCTCCTTATGCCATTTAATTTGAGCTGTGTGTGACCTGTTTTCTAACAGACCTTGCTTGCTTGCTCTCCATCTCTGCTTCCTTATGTGAGAGGCAGTGCTGTTCTTAAAAAAGGCAGGAGTGAGGGAGAAGCGGGGCACTGCCAGATCTCCTTGGGCTGCTGGGAGACATGGCAACTTTCAAGAGCTGTTATCACAGAATCACAGAATGGCCCGGGTTGGAAGGGACCTCAAGGATCATGAATCTCCAGCCCCCCTGCCAGGCAGGGCCACCAGCCTCCCCATTTACTAGACCAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCCCATCCAACCTGGCCTTGAACACCTCCAGGTTGGACGGGGCATCCACAACCTCTCTGGGCAGCCCGTTCCAGCACCTCACCACTCTCATAGTAAAGAACTTCCCCCTGACATCCAACCTAAATCTTCCCTTCTTCAACTTAAAACCATTCCCCCTTGTCCTGCTGTTATCTACCCTTTCAAAGAGTTTACTCCCTTCTTGTTTGTAGGCTCCCTTCAGGTACTGAAAGGCTGCAATGAGGTAACCCCGCAGCCTTCTCTTCTCCAGGCTGAATAAGCCCAGCTCCCTCAGCCTGTCAGCCTGTTGTCTTACCTCTTATTTTTAAGATAACTTTAGGAAGCTCCTGCTTGTTTTGCTTGTCGTTTCTCTACAGCTTGTGCCGCGAGGTGGCAATGTTGTCACCCGTGTAATTTCATTGCGGTCCCTTTGGTGGCAATATTACTTCAATCTCTGCCGCTGTCCTTTGCAGAAACTTGAGTCGTGCGTTTGCTACTGATAGATGCTGCTGTTGGAGCAGATGCTTGCTTCTTTACTACATAATAAAATTTGAGCATTACCATATGTAACACAGAATGGCGTGGCTTTGAAGTTCCCTGCTCCCTTTCCTTTTCTTTTAGTGAGCCATATGGACTAAACTAATCTGCTGACAAGATGTCTTTTGGCACTCTTTTTTTCCCAG
Seq C2 exon
GATGTCTCTGCAAGATTTTAAGATTCATTTTGTAGACGTTGTGATCTGTAAATTAACTCCAGACCTGGTGAGCCAGGAAGATGGGAAAAAGTGGATGTATTCCCTGAAGAATGGGAGATGGGTTAAAGGAAGCACAGCAGGAGGAAGTCTGGGATTCTCCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009069:ENSGALT00000014761:8
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:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=33.9),PF0106717=Calpain_III=PU(16.3=44.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTACAAGTGGGAGTTGCTGA
R:
CCTTGGAGAATCCCAGACTTCC
Band lengths:
238-1614
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]