GgaINT0124319 @ galGal3
Intron Retention
Gene
ENSGALG00000003661 | SETX
Description
NA
Coordinates
chr17:7144508-7144959:-
Coord C1 exon
chr17:7144850-7144959
Coord A exon
chr17:7144728-7144849
Coord C2 exon
chr17:7144508-7144727
Length
122 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TGTTTTGTTGTAATCCTTAGATT
3' ss Score
9.11
Exon sequences
Seq C1 exon
GTGAGCTTTGTGTAGAAGTGCTGTGTAGAATGGAAGAAAATCACACCTCCTTTCAGGTTTTTGAGAAATATCCAGGAATTTATCTATTTTTGGTACACCCAAATGAAGTG
Seq A exon
GTAAGTTACTTTCTCTGTTCCACTAAAGCTTGATTTTTAAGTAATGTTAGAACAGATTCTAACAGTTTCTAAGTGGTTTTTGTGTTTATTTTCTTGTGTGTGTGTTTTGTTGTAATCCTTAG
Seq C2 exon
ATTCGTCGTTGGGCCATCCTGACAGCAAGGAATTTAGGGAAGGTTGACAGGGATGATTACTATGACTTACAGGAAGTGTTGACTTGCTTGTTTAAAGTTATTGAACTGGGGCTTTTTGAGAGTCCAGATATTTACAGATCTTCAGTGATTGAAAAGGGGAAACTCATTCTTCTGCCATCCCATTTATATGATAATAGCAACTACAAGAACTATTGGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003661:ENSGALT00000005801:4
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:
NO
A:
NA
C2:
NO
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:
TCACACCTCCTTTCAGGTTTTTGA
R:
TGGCAGAAGAATGAGTTTCCCC
Band lengths:
247-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]