GgaINT0124340 @ galGal4
Intron Retention
Gene
ENSGALG00000003661 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr17:6495433-6496315:-
Coord C1 exon
chr17:6496223-6496315
Coord A exon
chr17:6495598-6496222
Coord C2 exon
chr17:6495433-6495597
Length
625 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TTCCTCCATTTCTTGTTCAGCTC
3' ss Score
9.05
Exon sequences
Seq C1 exon
AGCAACAGAAGAGAACAGATGTTCTTCAGAGTGGCCATTCCAGCCCTATCTTGTTTTTGATGTAGGAGATGGCCATGAGGAGCGTGACAAAGA
Seq A exon
GTAAGTCCTGCAGTCTACTCTGCCAAATTGTGCATGTGCTGAGAATCAGTTACCTGCTGAAGAGTTGTTCTTTCTTGTACTGTTTCCAGTATGTATCAAGTAGCCAGATCTGCATTTTCAACTTGGTTTGATTTATGGGAGAAATTCTGCTGGAAGCAGGTGTTGACTTGTGGTGGTGGAGGGTTTATTTACTTACCTGAATATAGTTTTAATCCTGTTGTGACTGTCTGCTAGATGCCATTGAATCCTTACAGTTTATGCTAACTCAAGAGGTGGTTTAAGTTTCTGATGTATCTTATTTATTTTTAGTCAGTTAGTTTTTCTTCACAGCTGCATGCTGAGGTAAGACCAGAAGATGGCAGGCTTGGTCCTCTCTTTTGTATATTCTGTAACGAAAGCAAAGCTATATCATTTTAAGGGAGCATGAGGCGTAGCCTGAACGTTTCTCCTTGTTAGTACCTTGTCAGGGCCTGCTTCTGAAGGTCTTTGAGCATCTGTGTGAAGGAAGCTCTGGAAGTTCCAAGGGGGTCTCCGAATCTCAATTTCACTTTCAGTTTGGCTGAACTGTTGAATTCAGAAGCTGTCAAATGTATTTTTTTTAACATTTCCTCCATTTCTTGTTCAG
Seq C2 exon
CTCTTTTAGTAATCCCCAAGAAGTGAAACTGGTGTTAGAAATAATTAGAACAATTAAAGAAAAAAGAAAGGATCTAGGTCTTCGTCGCATTGGAATAATTACACCTTACAGTGCACAGAAAAAGAAAATTCAAGAGGAACTAGACAGAGTGTTCAAGAATAACAG
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=0.125 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(15.3=100)
A:
NA
C2:
PF130871=AAA_12=FE(27.2=100)
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:
AGCAACAGAAGAGAACAGATGT
R:
TATTCTTGAACACTCTGTCTAGTTCC
Band lengths:
254-879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]