GgaINT0124341 @ galGal3
Intron Retention
Gene
ENSGALG00000003661 | SETX
Description
NA
Coordinates
chr17:7126435-7127188:-
Coord C1 exon
chr17:7127024-7127188
Coord A exon
chr17:7126534-7127023
Coord C2 exon
chr17:7126435-7126533
Length
490 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
GATAATATTTTCTTCAACAGCCC
3' ss Score
7.56
Exon sequences
Seq C1 exon
CTCTTTTAGTAATCCCCAAGAAGTGAAACTGGTGTTAGAAATAATTAGAACAATTAAAGAAAAAAGAAAGGATCTAGGTCTTCGTCGCATTGGAATAATTACACCTTACAGTGCACAGAAAAAGAAAATTCAAGAGGAACTAGACAGAGTGTTCAAGAATAACAG
Seq A exon
GTAAATAAACCATGACGTTTCAAATGGGAAGTGGCTCTTGTGTATTAGTCCCTTGATTATCCTCTTAAAATCACAGCAAAAACTTTAACGTTTTTATGTGCTGCCAAAATCTCCACTTGGTAATGGTTTTGAAAAAGGACACTACCAACCTGTTCTCTTAAAACAAATGTGGTCTCTTTGTACCATTTCTTAGTTATTGCTTGTCTATGTGCTTTGATTTTATTGCTGTTCTGAGCGTAGCTGACTTGAAAGAAAATCCAAAATTCCAAGCGATGTGGAACTGAACAGCTTTTTTAGCAGTGATCTTGGCCTCAAAAAAGGAAATTTTGCTTTTTACTCATACACTGAATCTTTTCAAGTTCAGAAGCAGAGGCTTAGTTTGAATAGTTCTGACAGCTGATCATTCAGGATAGTTTAGGCCATTTGCATCACTGTGTTGCTTAAAAATCCAACTAACAATTTAATGGCTTGATAATATTTTCTTCAACAG
Seq C2 exon
CCCAGGAGAAGTGGATACAGTGGATGCATTTCAGGGGCGAGAGAAAGATTGCATCATAGTGACATGTGTCCGGGCAAACAGCTCTAAAGGGTCAATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003661:ENSGALT00000005801:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(27.2=100)
A:
NA
C2:
PF130871=AAA_12=FE(16.3=100)
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:
TCTTTTAGTAATCCCCAAGAAGTGA
R:
CCAATTGACCCTTTAGAGCTGT
Band lengths:
263-753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]