GgaINT0081355 @ galGal3
Intron Retention
Gene
ENSGALG00000009382 | CAPN8
Description
NA
Coordinates
chr3:18838840-18839887:+
Coord C1 exon
chr3:18838840-18839000
Coord A exon
chr3:18839001-18839711
Coord C2 exon
chr3:18839712-18839887
Length
711 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTAG
5' ss Score
3.1
3' ss Seq
TTTGCCTTGCGGATTTTTAGCAA
3' ss Score
5.13
Exon sequences
Seq C1 exon
GATGGCGTTTTCTGATTTTCAAAGGCAGTTCACCCGTCTGGAGATCTGCAACCTGACTCCTGACACACTGACAAGCAATCAGGTCAACAAATGGGACCTGACCATGTTCAATGGACAGTGGATACGGGGTTCAACAGCTGGAGGTTGCCAGAACTACCCAG
Seq A exon
GTGTAGACCCAGCCAAGTGGCCATTTGGTGAAATAAACAACAAAACCACAAAAATAACTGCTTGTGGACTGGGGGTGGCCATAATTGGGAAGGGTTTGGAGGTACAGATCCCTCTGTGTGGTTTAGAGAGCAAGCCAGAGTTTGGCAGTCTAAACCAAGACCTAATTTACACTCATTTCCTTGTCAGGGATAATCAGCCTACTGTGCAGTTAATTCATGGCCACATTCTTTTTTTATTTTTTCCTTTTGTGTGCTTTCCCTACTTACATGGCTTTTGCTACTGACTGGAGTAATTCTCCAAAGGGCTGGGTAAGCCAGGAAAGTGTCATAGATCAGTAGTAGTGTTGTCTCACATTCATTTTCAGGCTAGACTTCTGGAGAGGCTGCCTGATATTTGGTCCTCTTGAAAGAAAGCTAGCCTTAGCCAAAGACATTCCCTGAAGATAAATGACTGGCTGGAATTAATGGTATCAGCTCCTCCCTCTTTGTCCTTACATCCTAGGAAATACCACAGTGTTTTGATTTGCTATGGCTCCAACTGATATACAGCATAGCCATGAACCACATAAAACCATGTAACATGCTAGAAAGGTTTGGATGAACTCCAGGCAAATATCCATCCAAAGAGATTTTCTCTGTAACTGTGGTGACAACCATTCTGGCTTCGATGACAACAAATTCTCCTTTTTGTTTTGCCTTGCGGATTTTTAG
Seq C2 exon
CAACATACTGGATCAATCCCCAGTTTAAAATCCGGCTGGATGAACCAGATGATGATCATGAAGGGAGTTTGAATGAGCCATGCTGTACTATATTGGTGGGCTTGATGCAGAAGAACCGCAGGAGACAGAAGAGAATGGGAGAAGGTCTGCTTAGTATTGGTTATTCACTCTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009382:ENSGALT00000015288:9
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=0.051
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.2=43.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(36.7=100)
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:
GGCGTTTTCTGATTTTCAAAGGC
R:
GTGAATAACCAATACTAAGCAGACCT
Band lengths:
326-1037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]