GgaINT0124327 @ galGal4
Intron Retention
Gene
ENSGALG00000003661 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr17:6504293-6507593:-
Coord C1 exon
chr17:6505106-6507593
Coord A exon
chr17:6504393-6505105
Coord C2 exon
chr17:6504293-6504392
Length
713 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TTTTACTTTCTAATACGTAGCTG
3' ss Score
5.68
Exon sequences
Seq C1 exon
GATGGTTTCTGGACATAATACTTCAACAAACTCCCAGATTGATAAAGAGCTCAGTAAATTGTCGTTAGCTGCTTATGCCAAAAGTGTCAATTTTCCCTCGGAGTCAAGCCAGGAAAGCTCAATGCATCATAATATATGTGATGTTAAAAGGAAAGTGAAAAGTGCTGTAAGATCCTCCAACAGTGCCCAGAGCAACCAGTCTCTCTGTGATACAGATAGCCATGGCAATAAAATCATTATAATTTTAGATTCTTCCGATGAAGAAAACGGTGTTACTGTCAATGAGGAAACAAAAGAACTTAATGAAAATATGTGTCCTGAAAAGCAACCTGTATCAGAAATGCAGCATGATGTTACAGGTAGCACATTAGAGTCAAAGATGCCAAACTCTCCCTTGCCACTTGAAGACTGTGACTCTCAGTACTTTGAGTTTGAAACAGAAATTGATGTCTTTTCAGTTTGGCAGGATACTCAAGAATATAAACAAGACTGTGTTTCAGCATCGATTGACAGTCATTCAGATGGCTTATCACAGGATCACACAAATGAATGGGGTTATGATACAGATTATATAAGTGATGGTGCCATGGAAGAAGAAACAAAGTGGACAAGAGAGGAGATAAATACTTCTCATCAGAAAGAAACTGATAATACAGAAGTAACTAATTCAACTTTGCAAGAATTTTCTACTAAAGAAAATGCAAAAGATGAAGTGGAGATTTCTACTGATGGAAGTACTGTTGATAAAGACTTCATTCTGAATGCAGAATTGACAGAACCCAGAGCTTCTACATCCAGTGTCTCATTAGCTTCGAAGCTGGCATTTAAGAAAAGTACTCTGAGCCCACGTAAAAATACAACTAAATCTAAGGTAGCAAGAAGTATTCAGAGAAGTCCTAAAGCAACAGCTCTGAGTGCAACACAAACTAAAAAACTATTTCAAAGTACGTTAAAAAGAATTCAGCCTGGCAGGACAACGCCTGCTGTTGTTCCTCCAAAGAAAGCTCGGCAGTGTCCTGCACCAACATCAACAGTGGAAAAACTTGGTCTGAAAAAGGCACCCCGCAAAGCATTTGAATTGTCCCAGCGCTCTTTAGATAGTCTAGCTCAGTTGCGTAGTTATGGTAAAGTTGCAGGGAAAGTTGGAGTTGCACAGAGAGGGAAGGTTAAACGAACTGCTCATCCGAGTTTATCTACACAAATTAACAAGAAAATGCTGGCTTGCCAAGACCTTCAGTTTTTAAAGCAAACAAGGCTCAGCAAAAGTGTTCGAGTGAAAAATACTCCGAGGTGTTCGGAGGATAGAAGCAAGAAAGTTAACACAATGGATACCAAGTCTGTCAAACAAAAGGCTAAATGTTCTGATCAACCATCTGTTGAAAAGCAAAGAGAAAAACAAACGGGAGAGACCTTTTATCCATCTGTCAATGAGAGAGGACATGTCACTAGCATCTCTGCAGAGAACGAGGCTGCGCAAACTACTTTTGTCTCTGATTGTTCAGGCTCAAACAAAGCTAAAGACTGTGATGTAATGGTTCCTCCTGTACCAATGGATTCAAGTCTGTGTTCTGATGCCACTGTTGGAGATGATAAAGGTAAACCAGAAGGAGGTTGCACCGTCCAGCCTGAATCTGGGGTGACACCTTCAAAAGAAAATGAGTGCAAACCAGATGAAAACAGTGATGATGATGATAATTTATTTTTAACTCAGTTAGATCCTGTGGATATGGAATTGTGTTCCCAGGATGAAGATGCTGAAGGCAATACTATAGCTACTACAAGAACAGAGGAAATGGAAATAGATCATGCTGAGAGCCTTCAGCAGAATGATACCTTGACTGTTGTGAAGTGTAAGTACAAAGACTGTACGGAAAAAGTGAAAAAAATAGGAGACTGCTGTAGCAGGCATTTGGCCACAAATTCAGAATCAGATCACTTGTTTGCCAAGCCTTCTTCCCTGCCACCAAGAAAACCTTCCACTACCAAAATCTTCAGCTCAGTAAGTTCTTCGCGAAATGCAGCCTTCAGCAAAGATCTCGAAAATGTTGAAAAACAACCACCAGCTTTAAAAAGCAGAGCTAGCATTGCAAAACCTGCTGTGTTGAGACCCCGGAGTGAAAAGGCTATACCAACAAGAAAGCAAACATGCAGGACTCCAAGTTCCAGTAATATTCCTCAACCTTATATTTCTAATAACGTTCTCCAGTCGCGAAATAATACACAGATCAACAATGCTTCAAATATTTCCAGATGGCCTGTCCAAGCAGAACGTTGTTCTTCCTTTCTTGGAGCTCAGCAGCACGATCATAATATTTTTGTAAAGGAGGTTCTGAAGTGGACTTATGAAATGTTTGCAAACTCCATTCAGTTTGGACCTCCAAGTACTCTCGTGCAATCTGTAGTGGCCTCTGTTCCCATCAGATTTCAGGGATACAATGACTATTTTAATACGTTTTTCCCTTTGATGATGCTAAATGCCTTTGAAACA
Seq A exon
GTAAGTTTTTCTCAGTTTGTTTTAATCAACCGTAGTTAGTAAACTTTGGAAAGAGATGTAAAACTGTTTTATGTTTTCTATTTACATTACAAAAATATTCTTGTTTGGTTCATATGTTCTTCTGAACACAGGAATGACTTGGGACAAATAATAAGGCTTTTTTTGTGCATGTTCCCAATAACATGCAATGGGGGGTATTAAAAAAAAGTTGTTCCTCATAACATTTAAATCTTAAAACAGCAATTTTTTTTTTGAAACTGAGGTTTTTCAATGACAGCCTCTGTGTTTTAACAAAAGAAAAGTTTCAATTAATGTTAAGAAGTTAAAATGAGTGTAGGTTAATCTAGGAAGTACTTATCTCCCAAAAAATTCTATACAATAGTTTTAATAGGAAACACTGTTCCTTTAGTTAAAAACTGTATGTTTTTAAGGTTAGTCATTGCATCTCTTCTGCAGTAGAAATAAGACTAAAAACAAATTAAGTCAGAACCAGGGTAATGCTGGCGTGCATGAGGATGTGAGGCAGAAAAACCCACCTTTGGTTTAAAGGGCTGTGTAAGAGAGGTATATTTAAAATGGCAGGAAAAGTAAAAGTATTTTTGCTTGCTGCATATGTCTTGTTTGACAGCACTTGGGAGTCATGATGAGCTGTTCCTCTGAATCCCTAAATCCTTCTAAGTGTTTTTATGTAGCTTTTACTTTCTAATACGTAG
Seq C2 exon
CTGGCACAAGAGTGGGTAGAAAACCAGAAGATGAAAGACAAGACTTACTACTTACACTTACAGAACTTCTGTGCTGATTTGAATACGGCAGAGTTTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003661:ENSGALT00000005801:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.664 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATATTTCCAGATGGCCTGTCC
R:
ACTCTGCCGTATTCAAATCAGCA
Band lengths:
342-1055
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]