GgaINT0079541 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7772417-7773850:+
Coord C1 exon
chr3:7772417-7772453
Coord A exon
chr3:7772454-7773787
Coord C2 exon
chr3:7773788-7773850
Length
1334 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
GCATTTCTTCTCTGATCCAGGAT
3' ss Score
8.61
Exon sequences
Seq C1 exon
GAACTCAAACTCTCAGCTCAACCCAGCGCCGCCAATG
Seq A exon
GTAAGAGTCCATGGAAACTGATACTGGTGGTGGTAAGCAGGGGGGAAAGCGTTTCAAAGACAACTGATTCTTGCAATGTCTGTAAAATGGGTATGCATCCAGGGAGGAAAGAGGGAGAAACTGATCTAAACTCCACAGCTCAGTATAGCCGTTTTCAAAAGACTTCACACCTGAGAGCAGAGTTGTACATGCTCTCCCCAGGGGAATGGCTTCTCTTAGTGCTTGCGTTCTATAAAGAGCAGGAGTCCATGGAGGGAAGACACAAAGCAGACTTCTGCAGGTTTTCACCTAGGTATCTTCACAGACATAAGGGAGGCTGCACTTCAAATCTGGGTGCACCTCAAGTTCAACCCACATTTCAGCCTGTCCAGCCCAGTTGCCATCCATTTAACGCTGGATATTAGGAAAAAATTCTTCTCAGAGAGAGCAGTGATTCCGTGGTTCTGTGATCTATTGCTGGACTTCCTTACTGTGAACTGTGCACGTTGTCAGACCTGGTGCAGTCCTGGTCATTTGCAAAACCCTGCTGCTGAGCAGGCTGTTATTTATAGCTGTGTAAACTCAGTGTGGGGCTGCGAAGCCAAAGGTGCTCCAAGAGAATGGGAAATGGAGTCCTTCCCTTGTGATTCATTTGCCAGCCTGCAATTAAGCCCCATTAGAGAGGTAGCATAAATGGTGGCTTATTATCTCTTCCCACTGACAAGCTGTCAGTTTACTTGGCTGTTGTCATTAGCCAATGTTTTGACTTTGACAAATTATGGTTCCCACAGTTTCTGATCTTATTCAGGCAGTTGGACTTGGCTAGTATGAATAAAACTGAAGGCATTAGGGCTTAAGCTCAATTTTTTTTTCATGAAACTTTATACAGCTAAGGATATTTCTCCATATTGGCTCCACAGAGAGCTGCAGTTGTTCAGGTACAGTCAAGCCTGCACTGTGGTAAGAGAGAAGGGAAAAGTCAACGTCTGTTCTATTCTCTTGGTTCATGCCCTTCCTGGTGCATCTTCACATGCCCGCAGCCAGTGGTTTCAACTGAAGGCCATCAATAAAGATCAGGCCTATTTAAACTCTCACATACTGACTTGCTGAATTCCACCCCAAGATGTGAGTTGTCCTCCTCAGGCCCCCTCCCAGCTGTGCTAAGTGATAACATCCGAACTGTGCTTCTTCCTTCATTGCAGGAGCTTTCTTACTCCTAGTCCACTTTACTTGAGGGATGTTAAAACTGAGCTTCTACTGTCGATTCTCTCTAAAGCATTGTTTGATCTTCAGACTGCTGCTTCCAATTGTTTTGTAACTGAATTATTTATGTGCGCATTTCTTCTCTGATCCAG
Seq C2 exon
GATGTGCCAAGACAGATACAGGACAGCTCCTATAAGGCCATCTTCCTAAAATATGCGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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]