GgaINT0081347 @ galGal3
Intron Retention
Gene
ENSGALG00000009382 | CAPN8
Description
NA
Coordinates
chr3:18823456-18825437:+
Coord C1 exon
chr3:18823456-18823734
Coord A exon
chr3:18823735-18825367
Coord C2 exon
chr3:18825368-18825437
Length
1633 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TTGAAAATGTGTCTTTTCAGGAG
3' ss Score
9.04
Exon sequences
Seq C1 exon
CCTGCTCCATACACCTCTTCTAGCCCCACAGACAGAGGCAGTATGGCTGGGCTGGCAGCCAGGCTGTGCCAAGAGCGAGCAGCTGCTGAGGGGCTGGGTTCCTACAGGAAGGCCATCAGCTACTTGGGCCAGGACTACGAGGCACTGAGGCAGAGGTGCCTTCAGACTGGGACTCTGTTCAAGGATGAGGAGTTCCCTGCCTGCCCATCTGCACTGGGATACCAGGACCTGGGACCCTACTCCTTCAAAACCCAGGGAGTAGTCTGGAAACGGCCCACG
Seq A exon
GTAAGAGTGCTGTGTCATGGCATGCTTGGCTGGGTCTGGGTGGTTAGCATTCACATGAGCACATCCATGCTAAAGGAGTGATGCTGAATGCCTGCTACTCCTTTATGTTTGATTCACTTTTGATTCTATCCTGCCTTACCTAAGCTCTTCTTAAAGCAGAGAATCCTATAACTGACTATTGGGAATCGGATTCCTCCCTTTCTATCCCAGCTCCTCAGAGCTTCATATTCAGGGTACAGTCCAAGAAGGACACACACTCCCCATGTGCATCCAAGCAACCCCATGGTGCCCCATGGCACCAACCATTGGTTGTGTAAGTACCCATCCATGGTCCTTTCACTGGGTACCTTAGGGAACTAAGCTAGCACTTTCATAAACTTTCTGCTTTGCTTCCTTCTACCTGCAACAGCTGAGAAGCAGCTGGCTGGAATGTTCATCTCTCAAATATACACATCCTGCAAATGGCCTTTCATTGAAATTAGTCATTTTCATTAGGAAAAAAAAAAAAAAAAGGCACTGAAAGTCTTAAAACCAAAATGTATAAATCAATCACAGCTTCAAATATTTTTCTATCCTTTCATTTTTCAGTTATTGATTTCTGTACGTGTTTTGCTCCTCCTCCATTATTTTACCTCTCCGTGGAACATCAAGGTGGTGATGGATCGATGGTTGGACTTGATAGAGGCCTTTTCCAACCTTAATGATTCTAAAATGGGAGAGGAAGGAAAAAAAGGAGGAAAAGAAGAAAAAACACAAATAACTTACCTTCCTCTGATGTGGAAAAGGCAACAAGAAGGCAAAATTTAAGGCCTGTTTTTTTCTCTCCCTACCTACCCAAAAAAGATAGAAAAAGAATTTCACTGATTCAGTAACTCCGAGTTTCAACCCTTGCAAGCCCAGTGGCTCAAACAGCACCTTAATGAGCATTTCTGCAGCAAGTACTGTGAAAGTGCTCTTGGTTTTACATGTCTCTGGAAAACAGAAAGCGCCATCAACTTATGACGTGCTCCAAGAAAAGGAAGAGCTAGAAATGCAGTTGTGAGAAAGGTGTATGTGGCGCTTGGCAGCGGCTCAGAAGGAGCAGGTGTCTAAATGTGTAATATGTCATATACAGCTGACAGCCTGCAGGTGCTGTAACAGATTACTAGTTTGGAGGGGAAAAAACACACCAAAACCAAAACAAAAAGACCCCACAGCACAAACTTTTCTATGTGGTAGGTAATCTACTGCTGCCTCCTGTCCACCAGGACAGCTGTGAGGCAGCCAACAGCTGGATAACCACAGAAGTAAGAGGAATCTTGCTGAAATCACACCTACTGCAAAAAGAGATCGATAGTCTGACTCCTCTTCACGTACACATGAAGAAGTCCTGGACTGTCCCTGCCTCCATGGCCCAGTCACACGGGCACACTCAGAGCTGGCAGCAATCGGGAGAGCAGGCATGAATTTGGGCTCCCTAGAGGCTGCCCATTGCTGCTCCTTGGGGAATGCTTGGGAGAAAGGGGAAGCTTCTCCTTAATACAGCTATATATGTTTAATATTTTTTGGACTTTCCTATTGGAACAATTAACAAAAAAAGGGAACTTTTTGGACCAGAAAGGGTGATGCACACTTTGAAAATGTGTCTTTTCAG
Seq C2 exon
GAGTTATGTGACAATCCTCAGTTCATAGTCGGAGGAGCTACTCGGACAGATGTTTGCCAAGGAGAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009382:ENSGALT00000015288:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.092 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(11.3=36.6)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.2=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:
CCATACACCTCTTCTAGCCCCA
R:
CCAGCTCTCCTTGGCAAACAT
Band lengths:
343-1976
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]