GgaINT0054922 @ galGal4
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
calpain-3 [Source:RefSeq peptide;Acc:NP_001004405]
Coordinates
chr5:24951724-24953086:+
Coord C1 exon
chr5:24951724-24951735
Coord A exon
chr5:24951736-24952877
Coord C2 exon
chr5:24952878-24953086
Length
1142 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TTGACTCCATTGTTCTGCAGATG
3' ss Score
9.41
Exon sequences
Seq C1 exon
GTACCCAAAGAG
Seq A exon
GTATGAGCTGAATGGGGACAGACTGACAACTTGGTGTATGCTCACAGCTAGTGTCACTGTTGCTCCTGTCTGTAAGTCAGTGGGAAACTGTCCATTCAAGTTTGTTTTCAGGGATGTTACAGATGTGAAACTGCTAACCATTATGCTTTGAGTGTTTAGTAACATTTTCTGAGTCATTTTAAATTCTTTCTCACTTGTTCCCTGTTTTCACCTGCACCTGGTCCTTTTCTGTTCTATACGTGAGCTGGCCACTGCTTTCACTGTCCCGTAGTGAACCTGGACTACAGGAAGAAGCGTCAGCTAGCACTTAAGACATCACACCCCACAAAGAAGACCCCTAAAGCACTTCTGTATCCTCCTGCAAACAATGCCAGCAACTTATAACCTGTAGCCACAGAGTTTGTTCTACAGTATCAGATTTTTTGTTGCTATTATTAACAAATGGTATTTTCAGCCGTTGAAGAAAACATATTAGAAGTGCACAGACTGAGTTTTTCTGAGCCTGCCAATAGCTGAATCATTGGTACCAGAAGTTTGCAAGTGAGTTCACATAAAAGCTTTTGCTGGAAAATATAAAGATGACCATCTGAACGTTGTGTTTACAAACCTATTTTATAGGCAGTTATTTCTGTAGAAAGCAACTGTAAGCACTTGTTCTTAGCCCACAGGCATTGACTTATTTTTCATGTTTACATGAATGCAATGCCACTTTGGTAGATACAGAATTCATATTTTCCCAGGTAAGTTACCACTGAAAACACCTTCACCTTACTGTGCAGTACGTAGGAGCCTGCAGATACCATTCCCTGCCACACCACCCTCAAAGCAACTAACTGAACTTTTGGTTACATGCAATTAGCATCCAACAAAACATAAGATCATGGACACAGCAGAACAGCCAGCCAGCAGTGTCTGTGTGGGATGTTGGGCAGCTCACAGAAGCCAACTAAACCCAGCTAGCAGCAGCTTATAAAGATGACAGACTGTAACTGGTAACAAGCTAGCAGCCCCCATCAAATCCCTGCTTGCTAAGCTGCCGCTGCTTCATTTGTGTTTTCTGTCCCAAGTGCTGCCTGCATGACAAGCCACCTGGGGAACGGGTAAGACTTCCTTGCAGATGAGTTGACTCCATTGTTCTGCAG
Seq C2 exon
ATGCACGGTACTAAGCACCACTTGCAAAAGGATTTTTTCCTCTACAATGCTTCCAAAGCTAGAAGTAAGACCTATATAAACATGCGAGAAATCTCTGAGCGCTTCCGGCTGCCTCCCAGCGAGTACGTTATCATCCCATCCACATACGAACCCCACCAGGAGGGAGAATTCATCCTGAGGGTTTTCTCAGAGAAAAGAAGTCTTTCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:12
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=0.014
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(1.9=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(44.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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]