GgaINT0120681 @ galGal3
Intron Retention
Gene
ENSGALG00000008312 | PION
Description
NA
Coordinates
chr1:13674571-13675172:+
Coord C1 exon
chr1:13674571-13674696
Coord A exon
chr1:13674697-13675092
Coord C2 exon
chr1:13675093-13675172
Length
396 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTCTGCTTTATTTGTTTTGGGAT
3' ss Score
3.48
Exon sequences
Seq C1 exon
ATGCAAAACTCTAAAGGCTTCTGGGAGAAACTCGACTCAAACTTGGAGAGTGTGAAGTATGCAGAGCCACACTTGCATTACCACAATAATGTGCTCAGGAGGGAATGGCGTAATCTCTCAGAAGAG
Seq A exon
GTAAATATGTGTGCATTGAAGCAGTCTCCAGAACTGCTGCTGAAGAGTGGATGTTTTAAACCCAAGGACAGAAAGGTTTTTTGTTTTTTTTACTATGGAGATAAAGATATGGGAATCTGATTATGAGGAGTGCAAAGATTTGCATTCATTTACTTATAAGGTGGTTGCCTGTAGCTCTCACTTTGTGAAATTAATGCAAGAAAGTAAACAAAAGCAGAACTTAGACATACCTGTGTTGTTAGGTGGGTCAGTTATGTGTCTGTGGGCATCAGTATTTGGGAGGTGAGTTGAAGAATCACTAAGTGTTATTTCCATTCAAAATGAAGGTCAGCGTCATTCCTTGTCTGCATTTTATCAGGAAATATTTTAATTGACCTTCTGCTTTATTTGTTTTGG
Seq C2 exon
GATTTTTATTTATTTATAAAACAGACAGAAGAGAGAAGAGCCACAGCATATTTAAGGAATATATTTGAAAACGCCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008312:ENSGALT00000013530:19
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:
PF042697=DUF440=PU(16.5=35.7)
A:
NA
C2:
PF042697=DUF440=FE(28.6=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCAAAACTCTAAAGGCTTCTGGG
R:
TCCTTAAATATGCTGTGGCTCT
Band lengths:
182-578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]