GgaINT1024690 @ galGal4
Intron Retention
Gene
ENSGALG00000014370 | SEL1L3
Description
sel-1 suppressor of lin-12-like 3 (C. elegans) [Source:HGNC Symbol;Acc:HGNC:29108]
Coordinates
chr4:73010860-73011287:+
Coord C1 exon
chr4:73010860-73011000
Coord A exon
chr4:73011001-73011224
Coord C2 exon
chr4:73011225-73011287
Length
224 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTCACTATACATTTCCTAGGGC
3' ss Score
7.26
Exon sequences
Seq C1 exon
CAACGATTGGCTCAGATGCTGTTTTGGGGCCAACAAGGAGTGGCAAAAAATCCTGAAGCAGCAATAGAATGGTATGCAAAGGGTGCAATAGAAACAGAAGATCCAGTGTTAATATATGATTATGCCATTGTGTTGTTTAAG
Seq A exon
GTAAGTAATGTTTTGTGTTTCCACCTCAGAAACTCATTATGGTTTTGCAAAGATGTGAATGAAGCATGAGCACAAAGCTGCATTTTAAATTATAGGTTTTTAAAGTCAAATAACATCTAGTGTTTGTATTGATGTTAAAATGCATTTAGCATTATATATGTGAATTTTCATCAGCATGTATTCTGTAATTGTAAGCAATGATTGTTTCACTATACATTTCCTAG
Seq C2 exon
GGCCAAGGTGTGAAAAAGAACATAAAACTTGCTTTAGAACTGATGAAGAAAGCAGCAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014370:ENSGALT00000023214:12
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:
PF082387=Sel1=PD(84.8=59.6),PF082387=Sel1=PU(27.3=19.1)
A:
NA
C2:
PF082387=Sel1=FE(60.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACGATTGGCTCAGATGCTG
R:
CTTGGCTGCTGCTTTCTTCAT
Band lengths:
204-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]