GgaINT0081364 @ galGal3
Intron Retention
Gene
ENSGALG00000009382 | CAPN8
Description
NA
Coordinates
chr3:18848744-18849832:+
Coord C1 exon
chr3:18848744-18848822
Coord A exon
chr3:18848823-18849715
Coord C2 exon
chr3:18849716-18849832
Length
893 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGTATTTCCCATGCCTTCAGGTT
3' ss Score
9.75
Exon sequences
Seq C1 exon
GCAATCTACAGGAAGGTGGACAGAGACTACTCGGGTACCATTGACTCCCATGAAATGCGAAATGCACTCAGCGAGGCAG
Seq A exon
GTGAGCCTTGGGGTTGCCATTGGACCAGTGCAGTTCTCCACTAAAAAGCACCAGGGTGCAGGAGGGACTTTTCATGTCTTTGCTTCCCTCCCATCTCCTAAATCAGAGCATTGCAAGTGCTGTTCTCCTGTCCTAGTAAGTCCTTTATGCTGTTATATACATCAAAACTCATCTGTTCTGCATTCAGAACCACTGACATTTTTGTCCATGCTGTGGTTATTGCTTATCCATCTGATTATTGCTTGCTGTATTTCTGTCCTCATTATTTCCTAATCAAATTGTTCCCCTTCAGAGTTATGTCCAAACCCTCTTTTTCCTGCATTTCCTTCTACCACTGATCTCTACAGCAGAGAGGGTGCAAAACTGATCCAGACATTCCTCAGCCAGATCCCCTCTGCTGTGTGCTATTCACTTTTGGAGCAATGCTTGCCAGCTAAAGCCTATCTACAGGAGCAATGTTTTTTGATCTCTCTTCTTCGTGAATGGTCTAGAGGCAGAAATAGCACTAATATGGGCCTGAATACAGCCCGGTGTGTTATGTGAGAAATTAGCTCTACTGCAGTCGCTGCTATTCAGCTGCAGCACCAAGACTTGCTAATTAGGGATTTATCTGGGGAATATAGGATTGCTTATGTTGTGAAACAATGTGAAATATGCAGTCTGACAAACATGCAGTTCTGCTATAGGAGAACTTCATGCCTCTCTTCACCCAGAGCAATGTATTTTGGAAGAGACCCACAGCAGATGTGGGTGATGGAATCCAGTAGACCTTCTGAGAGGAAAAATCTTCCACCCTTCATCTGCCCACAGATGCAGCAGTCCATGGATAAGTCACATGAAAGATAGCTTAAGAACAGCTGTGTCAATGATTTGTGTATTTCCCATGCCTTCAG
Seq C2 exon
GTTTTGTGCTCAACAACCAGGTGCAGCAGAGTATTGCCATCCGCTACGCCTGCAGCAAGATGACCATTGATTTTGATGGCTTTGTGGCCTGCATGATCCGCTTAGAGACCCTGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009382:ENSGALT00000015288:18
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:
PF134051=EF-hand_6=FE(78.8=100)
A:
NA
C2:
PF134051=EF-hand_6=PD(9.1=7.5)
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:
GCAATCTACAGGAAGGTGGACA
R:
GGGTCTCTAAGCGGATCATGC
Band lengths:
190-1083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]