GgaINT0078823 @ galGal3
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
NA
Coordinates
chr3:18811241-18812367:-
Coord C1 exon
chr3:18812234-18812367
Coord A exon
chr3:18811410-18812233
Coord C2 exon
chr3:18811241-18811409
Length
824 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
GGGTGTGTGCTTTCATGCAGGCT
3' ss Score
7.79
Exon sequences
Seq C1 exon
TTCTGGCAGTACGGAGAGTGGGTGGACGTCGTGGTGGATGACCGGCTGCCCACCAAGAACGGGGAGCTGCTCTTCGTGCACTCGGCAGAGGGCAGCGAGTTCTGGAGCGCACTGCTGGAGAAGGCCTACGCCAA
Seq A exon
GTGAGTACAGGCCGGGGTGGCCGCCTGGGGCAAGAGAGGCTGCTTGTTCTCTCTTCCTGCCTCTGGTTCCCCATAGCACCCACCACAGTGCAGATACTACACATTAAAAACGTCAGTCTCATTATCACGGCGGCTGCTTTAGTGAAGCTGTGCTGACAGGTGCTGCTGACAGCAGCCAAAAGTACTGTCTTTGCTGCTAGCCAAGAAAAACATCCCCTGGCAAGCCTGTTCTTCAAGTGTCATCTCCTGTTACTGGGGTCTGGGAGCTCCGTTTCATGTGCTCTGAGCACCTGTGAGGGTTTACAGCTGCAGTGCTGTGGTATGCGAAGCATGCCAGTCCACCTGCCCAGATCTGTCTTCAGGGTGAAGATACTCAAAGGTAAATTTCCAGTTTGGGAGGGGGTCAGGGAGGAATTCTGCCATATAACATTACAATTTTTAAATTGACTTAAGGAATGGAGCTATTTTAGGGCAGCTGAAAACCAATCCCATGATTGTTCAAGGGAGTGAAAGAATGTGGAGAACAAATATGTTGTTCTTGTTTTTTGAGAGTTTGGGGATTTTTTTTGTTTGTTTTTTGTTTGTTTGAATAACATCCAAGTTTTTCTTTGTCACTGATATGACTGAACTTGCAAATGATCACATTCGGCCTTACTCTTAAGAAGTGTAAAAAGGAGAGCTGAAGGAAGGAGGTTGTCTTTGTAGCTGCCATGGTGCTGTTGAAAGCAGAAGTGCTGTGACAGTTTGCACAACTGAGTGCCAATCTCCAAGACAAGAGGAGAATAGGGACCCTGATGGTTGTGTGGGTGTGTGCTTTCATGCAG
Seq C2 exon
GCTGAATGGATCATACGAGGCTCTCTCTGGTGGCACCACCACTGAAGGCTTTGAGGACTTCACTGGTGGGATTGCAGAATGGTATGAGTTGCAGAAGGCACCACCCAACCTCTTCAAAATCATTCAGAAAGCACTGCAGAAAGGCTCTCTCCTTGGCTGCTCCATCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015241:4
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=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGGCAGTACGGAGAGTGG
R:
TGGAGCAGCCAAGGAGAGAG
Band lengths:
298-1122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]