GgaINT0038642 @ galGal3
Intron Retention
Gene
ENSGALG00000003399 | SELE
Description
NA
Coordinates
chr8:5315165-5315632:+
Coord C1 exon
chr8:5315165-5315347
Coord A exon
chr8:5315348-5315452
Coord C2 exon
chr8:5315453-5315632
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TGTTGTGATCTGTGTTGCAGCTG
3' ss Score
9.94
Exon sequences
Seq C1 exon
CTGTGACCTGCACTGTCTTAAAAGCACCTGCTAATGGCTCTCTGAACTGCTCCCGTTCCTCTGAGTTTACATGGAATACCACCTGTGAGTTCACTTGTGAGGAAGGATTTGCTCTGACAGGACAATCCACGCTGCACTGTGGCTCTTCTGGGGCCTGGGACAAGCAGCAGCCATCCTGTGCAG
Seq A exon
GTATGTTTTTCCATACCCACCTGAGTCCTTAGGGCTATCAGCATTGACTGGCATGTTGAGTTCCTGAGGCCTCTGTGCTGACTGCTGTTGTGATCTGTGTTGCAG
Seq C2 exon
CTGTGAGGTGTGATGCTGTAACCTGGCCAGAAGAAGGTTCTGTGAGCTGTTCTTATGCAGATCCCACCTATGGCTCACGTTGTGATTTCCGTTGCCGAGAAGGCTATGTTCTGGAGGGCCCATCCAGCACTGAGTGCATGGCACAGGGACAGTGGTCAGAGCCATTCCCAAAATGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003399:ENSGALT00000005376:6
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:
PF0008415=Sushi=WD(100=91.9)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACCTGCTAATGGCTCTCTG
R:
GGCAACGGAAATCACAACGTG
Band lengths:
256-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]