GgaINT0054927 @ galGal4
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
calpain-3 [Source:RefSeq peptide;Acc:NP_001004405]
Coordinates
chr5:24956607-24957244:+
Coord C1 exon
chr5:24956607-24956684
Coord A exon
chr5:24956685-24957186
Coord C2 exon
chr5:24957187-24957244
Length
502 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GTCCCCTTGTTTCCCACCAGGAC
3' ss Score
11.37
Exon sequences
Seq C1 exon
CGTTCTTCAGCAAAAGCTCGTGAGAAGAGTGAAGAGGAAACTCAGTTCAGGAATATTTTCCGACAGATTGCAGGGGAT
Seq A exon
GTGAGTACACGACCAATCCCTACCTCTGCAGAGCAGCCAAGCCACAGCAGCACCTAACCCAACTTCTTCACAGATTCAAAACATAGAAAATTTAAGTTTTCTTTCACCAGATTTCCTTTGGGAGCTGAAGTTAAGCAAAATCAAATGGAAATTCAGTTAAGCACACAGCTATGCCCGTGTGCATATGCAACTCATTGTCATTGTGTACAAAGGAGCCTTATTCAAATTCAGGCTCTTACTTCTATCGCTACTACGTGAAGCTATTAGTGATTTCTTAATCAGTGTTACACGGTATGTATAAGCAACGCATAGATACATGTATGTATTCAGACATGTTTGCATGTTGCACTAAAGGAATCAGAAGAAACAGATCAAAACTGCATGAATCAAGAAGCGGCAGAAGGGTTGCAGAGAATTTTACACATTGCTTATACTGTGGCTTGGAATTATTGCCAATAAGGAGCATTGCAATTAACTGTATTGTCCCCTTGTTTCCCACCAG
Seq C2 exon
GACATGGAGATCAATGCCGAAGAACTCAGGAATGTTCTCAACAACGTTGTTAAAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.615 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=100)
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:
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]