GgaINT0054917 @ galGal4
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
calpain-3 [Source:RefSeq peptide;Acc:NP_001004405]
Coordinates
chr5:24946566-24948709:+
Coord C1 exon
chr5:24946566-24946706
Coord A exon
chr5:24946707-24948625
Coord C2 exon
chr5:24948626-24948709
Length
1919 bp
Sequences
Splice sites
5' ss Seq
TGGGTTTGT
5' ss Score
0.77
3' ss Seq
TTTTATCCTGTGTCTAACAGACC
3' ss Score
9.77
Exon sequences
Seq C1 exon
GACAACCTAGGCTTCTCCTACGGAGCAGCTCCTCGAAGTGACATTGGAGAACTGATTGCTCGAATGGTGAAGAACCTAGAAAATGCACAGATGACTTACTCCACTGTGGACTACCAGGGGACGGATGAAAGGCCAGCCTGG
Seq A exon
GTTTGTACATCAACAGAAGCAATTTCACAGCACTTCTATTTACAGCCAGAACATATCACCTGTGTTTTTAAATTCTTCTTTTACTTCAATCAATTATCCCAACATTAAGATCCATTCTTCTGAATGCTATTTGATGTTCATGTTAAAGAACTTCATTCCTTTCAAACACTAAAAAAAAAAAAAAAAAAACATAAAACTTCCAAAACTTCCATACATATCTGTATATGGACACATTGCTGTCCTTTTCTCACTACCAGGCAGTTGTCAAACCTTACTTTTTAGGGAGCTGTGTTTCAGTGGAAGAAACTAATTCCCTCTCCTTACAGAGGAGAGAAAAACAAAACGCCAACCCACCACTGAAAAAACATGTTATATCACCTAAACATTTCATTGTGCAAACTCTCTCCTGCAGGAAAAATGGCCAATTTGTAGGAGAAGCAGCCAATTTTTCCTCTTCAGACTTCCCTATTTAGTGTTCCTGAATGACTGAAATGGTGTAATTCTTTGGGAAGCCCAGTATGGCTGCCTTTTGCAAGCATGACTTCCCAAATCACCCGTGTTTTCGGGGGGAACTTCCCTCAGATGCTGATATTACTGATGAATAACTAATAGAATGTTACAGAACTCTTTCTATAGTTGCTGCTGTTTTACCGCTGGTTGTTACACTTCTGAGCCATCACCTGAAAAGTCTGTGAATCTCAATGGAAAGAAGCAGACAGCGCAGGCCACAGAAGCACTCCAGAGAAGCCAGCCAGAGCACTCACAGCATAAGATAATAGTCCTAAGTAGAAAAGAGAGAAAGAGGTTCTGCTAAATAATAATGGTAATGTGCGGAGAAAATAAGAAAAAAAAGAAAGAAAATAGTTATGAGGTAATAGGCAGAAGTATGGAAACTGGAATAAGATAAAAGAAATGAGAGCAGAAGGGAAATAACGGAAAATAATTGTGACAGCCAGGAAATACTTGGATGAGATTCCTCACTGTGCAAGCTGAGAATGTAGCTGTGTGACCTTACTAATTCTCCATTTCCAGCACTGACTTTCTCACGTCCTCAGATGTGTCAAAAACAGATGGAAGAGTTACCAGCAGAGCTTTGCAGTCTTTTCTCAGCTACAAACATAACGTGGGGAGAAGTTTCACACGTGGTCCACCTGCACTTTGCGTAGCCCCTCCTCTCCCATGATTCTCCATGATTTTCCCTACAAGCACAGCCGGCTATATAAGCCTGCCATCTTACTCTCAGTTCTTCAACTTCCAGATAAATAAAAGTGCATAGTAGCAGCTGATTACCAAGATAGCAAGTGTACTTGTATCTGCTGGAGAAAGCTACACATTTCCTGTGTGCCAGGTGAAAAACATAGTCTCAGGGATTATGGAATAAAGTCTCCATATCTACAGGAAATACATTTTAATAATAATGTTAGTAGAAACAGTGTATGAATTTGGGTCACGATGAGATTGCAGCGGTGCATAATGAAAGTATTCTAATAGGTGCTGAGCCGCTCTTGTTCTTGTTTCCAATTTTATCTGCAATAGCCTTACTGAGCCATACAATAGAATACTATCCTAGAAATGGCTGAGCAGTTCTATTAATAGAAAAATTAATTATTTTGATTAAGCATGCTATATACGAGCATGTTCTGAATGCAAACAGCAGCAAACCACAGAAAGGGAAAGAGTATATCACAAAATGTCCTTTACAATAATTATTATTAATATTTCGCTCCTTTAATTAATTCTTCACTTCTTTCTAATCAATGATATTCTCTGGATGCTAAGCTTGGTCACATTGATAGAAGATGAGAACAAGATTAAAAAAAAAATAGTGACACTATTTTTAGTGTCATCCTGCTTTCTGCCTCAGAGCTGCTGGTTGATCTTCATGTGCCTTTTCCGTACTTTTATCCTGTGTCTAACAG
Seq C2 exon
ACCATAATGCCAATGCAGTATGAAACCCGGATGTCTTGTGGGCTGGTCAAAGGTCACGCATACTCTGTCACAGCTGTGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(13.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(7.9=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:
CAACCTAGGCTTCTCCTACGGA
R:
AGCTGTGACAGAGTATGCGTG
Band lengths:
214-2133
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]