GgaINT0054926 @ galGal4
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
calpain-3 [Source:RefSeq peptide;Acc:NP_001004405]
Coordinates
chr5:24955900-24956684:+
Coord C1 exon
chr5:24955900-24956001
Coord A exon
chr5:24956002-24956606
Coord C2 exon
chr5:24956607-24956684
Length
605 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCTG
5' ss Score
2.04
3' ss Seq
CTTCACTTGTACCTTTCCAGCGT
3' ss Score
7.7
Exon sequences
Seq C1 exon
CCTATCATCTTTGTTTCTGACAGAGCAAACAGCAACAAGGAGCTGACAACAGACGAAGATGCTGGCAAAGATGGTGAAAAAACCCACGTAGATGAGAAAAAG
Seq A exon
GTTCTGCAGTAACTGGCGAGGCAGGGGATAGAGCTTGGTCTGGCCAGCATGAAAGGGCAGCTGGAGAGAGCACAGGAATGGGACAGAGCAGTGTCCTTACATACTTAGCAGTTTCAGAATTGAGGCTTGCTCTCTGCATGTGTCTGAGAAAGATGGAAATGATAACAGTGCAGCTATCTAATGTGGTATTAGTCTCCAGAACAGGGCCTCCCACACTGCAAAAATCTCTGAAGGCACCAAGCTCCTCCAAACAATTTCATAGGCTACAGGGTAGCTATGGGGCATGTTCTCCTCTTCTGATCCAAATTTCTCCTTTGCAATGTTTTGAAATGAAAAAGAAAAGAAAATCAGAATGTAAAGATCCATTCGTGAATGTAATCATTTAGATTGGTTTCAAGAATGATGAGAGCAATGAGGGGATAGTAACGATGCAGCGGGTTCATCAAGGAGTGCATTTAATGAAAGAAAGGGGAAAAGTCCATGAGGATAACTTGTTCCTCTGGAGAGTTCCACTATCACTAAGAGGCTTATCTGTGTGAAGGGGGTGAGCCACCCAGATCCCTTCATTTTCCTGGATCATATATTCTTCACTTGTACCTTTCCAG
Seq C2 exon
CGTTCTTCAGCAAAAGCTCGTGAGAAGAGTGAAGAGGAAACTCAGTTCAGGAATATTTTCCGACAGATTGCAGGGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.824 A=NA C2=0.615
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)
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]