RnoINT0133904 @ rn6
Intron Retention
Gene
ENSRNOG00000013491 | Setx
Description
senataxin [Source:RGD Symbol;Acc:1565575]
Coordinates
chr3:7698710-7704312:+
Coord C1 exon
chr3:7698710-7702831
Coord A exon
chr3:7702832-7704212
Coord C2 exon
chr3:7704213-7704312
Length
1381 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TTTCTTTTTGCTTTGTGTAGGTG
3' ss Score
9.81
Exon sequences
Seq C1 exon
GATTCTGGGTGGAGATCAGCCATTTGTCCAGATTATTGTCCAAACATGTATGAAGAAATGGAAACGTTAGCCAATGTACTTCAGTCAGATATTGGTCAAGATATGCGTGTTCATAACAGCACCTTTCTGTGGTTCATACCTTTTGTTCAGTCACTCATGGATCTTAAGGATTTGGGTGTGGCTTACATAGTAGAAGTAATTCATCATCTATACTCAGAAGTCAAAGATGTCCTCAACCAGACAGATGCTGTGTGTGACAAAGTCACTGAATTTTTTATTCTGATTTTAGTATCAGTGATTGAACTGCATAGAAATAAAAAATGCTTGCATCTGCTGTGGGTGAGTTCTCAGCAGTGGGTAGATGCTGTTGTGAAGTGTGCCAAGCTTCCTACCACCGCATTTGTACGGAGTTGTGAGAAGTCACCTGGAAGTACCCCCAGAGGAGCAGCAATAATGTCGTCCTTGGCGTTGCATTCAGTGCCATCGAACTCTGTCCAGCTTGCGTGTGTACAGTTGATTAGGGGTCTCCTCAAAGAAGGTTATCAGCTTGGTCAGCAAACACTTTGTAAGCGGTTCTGGGATAAACTTAACTTATTCTTACGAGGAAATTCGTCTCTGGGTTGGCAGTTGACTGGTCAAGAAACCCATGAGTTACAAATGTGTTTGAAACAAATAATTAGAAACATAAAAATCAAAATGCCCCAATATAGCACTTTTGGGGATACAACTTCTACATTCAAAACCCCTCCATCTTTTAAAGAAGAAAGTGAACAAATAGACAGGAAGCCTAAAAAAGACATTCATTCCTTGGGAAATTGCAGCCCAATACCTTCTAAAGAGCCAATGAAAGCTGACAGCCATCGAGTGCCGACGAAAGCAAGTGCTACAGAAGAGGAGGACTTCACGCAGCACTATATTGACTTGAATGAAGAAGAGCCTCTGCCGGCCGAGCTGGGCGTGAAGCAGAAAAGTGAGGCTCTTCTTTCTGAAAGTGCTCCAGAGCAAGTTAAAATAAGCACAGAAAAGTCTGGAAAAGAAAACTCTTCATATACAGCACCAAATAGTACTTCAAGAAGTGGTCCAGAATGGGGGTGTGACAGAGGAGTAATTATATCAACACATTCATTGACTGATTCTAGCAGCGATTTTCTGGAAAAGGTATCTACATCAAATGGAGATGTCCCATTAAAGGATGGCACTGTTGGTAAAACTTCAAAACCAAATTTCAAAGTACAGAAAGATGAAATTTGTGCAAAGTTATCACATGTCCTAAAGAAGCAACACAGGAAAAGTACTTTGGTCAATAACATTATTGATTTAGAGGAAAATGCAGCCACGTCTGACCTTGAGAACTGTTCAGGAACAGATAGAGGAGCTCTAAAAAAAGATACCATCGAACATGATGTGTCTTCAGACTCTGTTCTGAATGATGACCATGAAGAGCAAAAATCTAAAAACAGTTCGTTGTTCAAGAAAGAGATAAAAAGTGAGAAGTTGGATAATAGTTCTTTTGATGATGAAGACAAGCTTCAAATCCAGGAAGGCCATGCTGATGATGATTTGATATCATTTACAGAAGTTACTGATACACTGGTGAAGAAAACTCCATGCGAGGGTTCTGTAAAGGTGGCAGTTGAATCAAGAGATAATGAGATGAGAGTGCTGACTTCTAACTTGGAAGGACAGGTGCCTCATGACAGCAACAAGGCTTTGGTAGCAGGTCCTCAGGTAGACCTTTGCAACATAACTTTAATATCTCAAACCACTGTTATTCAATTTCCCTCAGGTTTAAGTAAACAGAATTCATTTCAGCTACAGAAAGATGATAAAAAATGTTTGACAGCTAACCACAACAGAGATGCCACCTGCCATGAACAAGTTATTATTATTTCAGATTCTGATGATGAAGATGATGCTGATGAGCAAGATGAGGATAAACGTTGTGGTATTGAGGGAAACATCGAACAGAGCAAAGTGTCCAGGGAGAATGACTGTTCAGAGCAGCATGATTTGGTAGTTAACACCAGTGTGGAAAAGAAGCTTGTGAAGGAAGAAGAAACAAATTGTCCTATAGAATTTGAGGACTCTGAATCTCAGGTTTTTGAGTTTGAAAGTTCATCTGAAGTCTTTTCAGTTTGGCAAGATCATAAAATAGACAGCAAAAGTTCCCTTCAAGAGGATCAAAAGAGCTGTATAGCTCATGTAGCTGATAGTACAAACAATAACTTAGGTTGTGGTGCAGATTCTGTGTCTGAAGAGGTTGTTAGAAACAAAGAAAAGGGTGTTAAAGAGCATGCAGAACCACACAGTAGTGTTTCTGCTGAGGGATTTTGTAAAATTGGAGTAAGAAAACCTAAGAGGAAACGATGTGATAAAGTTACAGCTGAAGATCCTCAGCGGCCTTCATCTTCTGTCAGAACTGAACAATTGGCTGAGCACAGAGATCTTCCTGAAAGGGACTTAGAGAGCGCAGATGTGGACATGGCAGCTCCCAGTTCTAGTGTTGAGAGAGATTCTACGGTTTTACAGAAGAAGTCTACAAAGCCTCGCCCTCACTCAAAACCTGTTAGGAAAGTTCCAGCTTCAAAGGCTACTAAGAAAACCCATCCAGATACCAGAAGAGGACAGACTAAGAGTTCATGTTATATAAGTTGTAGAACTTCTCCTGCTATTGTACCACCAAAGAAGTTTCGCCAGTGTCCAGAGCCAACTTCGACAGTTGAAAAACTTGGTCTGAAAAAAGGTCCTCGGAAAGCATTTGAGTTGTCCCAGCGGTCTCTGGAGTGTATAGTCCAATTACGTGACCACGGCAAGACTGTTGGAGTAGTTGAAGCCCCCAAAAAGACTAAATTAATTTCTCCTCAGACTCTCTCTATCAAAAATAATAAGAAGCTTCTGACAAGCCAGGATCTTCAATTTCAAAGGCTTATGAGATCCAGATCACACCAAAAACGAGACTTTGATTACAAAAATACTGATAGCGTAAGAGCAGTGTCACGCGTAGTGCAGGGTTCGGATGTACTTGCAGCAGACTCTGATGAGCCGGATAATCCTGGAGGAAGTGAGCCGCTTGCCATCAGCAGTGAAAAGCAGTTAGCGAAAGGCACGCTTTCCAAAGCAGAAGTGGCAGAAGCTGCTTCTGGTCCTTGGGGAACAGGTATAACTTGTCTTGTGAACCAGTGTGAATCTCGAGTGTTAAGTGGAGGAGTGCCAACAGATGTGCTGATGGGCTCTGCTTCAGAGGACCCTGTGGGTGGAGGTGCTCTCACAGTGCAGGTTGGGGAGGTGGCAGCAGTGAGAGCTGCAGAGCCAGAGTCCAGTAGTGATACAGATGATGATGACAATTTATTCCTAACACAACATGACCCTCAAGATATGGATCTGTGCTCACAGTTGGAAAATTCTAAAGCCATTATTGTGGCTCATAAAGATACAGTTCAGAGAGAAGACTCTCTAAGTCGGCCTCAGTTGGAGTCTTTGAGTATCATAAAGTGTAAATACAAAGACTGTGTTGAAACCACAAAAAACCAGGGTGAATACTGCCCAAAACATTCTGAAGCTAAAGCGGCAGATGACGACGTGTTTCGTAAACCTGGCTTGCCACTTTCTGTAGCCAGGTCCTCGAGACCTACTACTACCAAGATATTTAGCTCAAGCAGTGCTTCACGAACTGCCAATCTTTCCAAGTCTTTGGAAAGTACCACACTTCAGTCAGCACTGAAAAATAAGTCAAGTGGAGCACAGTCTAATTTGAAGATGACACCATCCTCTTCCCTGGGGTCTCAGAAGCCAGTGGCTGAGGTGAAAAGTTTATGCAATATTTTCCATTTTCAGACTCCGAGCAGTTCCAGCAAACAGAGTTACAAGTTTACCTTTAGTGAGAACAGGCCTGCGTCGGCTGCTTCTTCAGTGGACATTCTCTTGCCATCCCAGTCTATCTTTGACACCTTCATTAAAGAGGTCTTAAAATGGAAATACCAAATGTTTTTGAACTTTGATAAGTGTGGTGCTCCAACAAGTCTCTGTCAGTCTATCTCAAGACCTGTGCCTGTCCGATTTCAAGATTGTGCAGAATATTTTAATGTTTTTCTACCTTTGATAATATTGAATGCTTTTGAAACA
Seq A exon
GTAAGTATTCTTTAATTCTTTGCCCCTTCTGTAGATAGAGAAATGGTTATGAGCATATAGCTCCCTAAGTTTCGGTTGAGTCTATACTCACTTCAGTGAGAAGCTATTGGAAGGTTTGGAGTTGGTCTGTGTTTAGACCAGGGACTAGTAATACACACTAGCTTATTTCTTACCCCACATCCTTGGTTGTTGGGTAGAGAATAAATGTGGAAAGGCTAACAGACCTTATAGACTAGTTACAGGTTGGTTACAGCAACTTGGGGGTAAAATGGTGGCTTTGGATGGTAGTTGTGGGGATGGAAAGGTACATTTTAGAATATCACACTGATGAGTGGACATTGAAAAGATGACTCTTTTGAGGCTTAACCTGGTTTTATTGTAATGTTTATGTTTACTCTCTGCCAGGAGTAAGGTAGAACTTCTTGAGTTCACCTCTCCTGATTTATAGGCTGGAGCAGTACATGGTGGGAAAGCCCCTGCTGGATTTTTCTAGACAAAAATGATGCATAGTGTGACAGTGGGTTGTGTCTACCCCTCTGCCTGGTTAACTTTGTGCAGAAGTAGTTTGGCACTGAGTGGTTGATGAACAGTTATACAAGGAACTGAGGACCAGATGCAGATTTAGCTACTTGACTGAAATGTTATTGTGAGATAAAACAAGGTTTCAAAGGCCAGTTGTTGTTGTTGTTTTGGTTTTTTAATGTAAAATAGCCTTTTTACACTAGGGTTTTGTTTTATTTTGTTTTTTTATAATTTTGGGCTTAGGAGTAGTCATTTTTTTTTCTTTTTTTTTGGGGGGGGAGGCTGGGGATCGAACCCAGGACCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCCAAAATCCCCAACCCCAGGAGTAGTCATTTTTAACTCATGAAAGATCTCAAAGATACTTCTGGGTTTCATTGAGGCTTTGAAAGACTACTACGTGTGACATAGAAACCAACAGGAAGAGTGCTTGTGCCAATTCCCAGAGATTGAGAGAAATGTAGGTCAGACGGTCTCATTGTGAAGTAGTTGCTACCCGTAAGATCTAGCAGCACAGGACCAGCTCCAGGGCCATAGGTCACTGCTGACCATGAGAGGTGTCTATTTCCTCTGAGGAATAGTATTTCTAGCCTTTGGAGTTCAGTTGACAAATAGAATCACATGTGGCTAATGGCTGCTGAATTGGAAAGGACGGTTGTGGACAACTTGACAGACCTCACAGACTGATTCTTAGGTGTTCACTTGGGATGCTGATCTGCTTTTCCTTTGCCCCACTTTGGAACATTTTGTTGTATGTAGTGACTTTTACATGTTCTTTATTTCTCAGTTTCTTGACTTTTTTTCTTTTTTTTTCTTTTTGCTTTGTGTAG
Seq C2 exon
GTGGCACAGGAATGGCTGAACTCTCCAAATAAAGAGAATTTCTATCAGTTGCATTTACGAAAATTTCCAGCCGACTATAAAAAATATTGGGAATTTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013491:ENSRNOT00000017984:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.458 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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGGCTGAGGTGAAAAGT
R:
AGAGTTCAGCCATTCCTGTGC
Band lengths:
357-1738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]