RnoINT0133897 @ rn6
Intron Retention
Gene
ENSRNOG00000013491 | Setx
Description
senataxin [Source:RGD Symbol;Acc:1565575]
Coordinates
chr3:7725709-7726892:+
Coord C1 exon
chr3:7725709-7725807
Coord A exon
chr3:7725808-7726804
Coord C2 exon
chr3:7726805-7726892
Length
997 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
ATAACTTTGTCGTTGCATAGATT
3' ss Score
5.93
Exon sequences
Seq C1 exon
ACCTGCAGAAGTGGATACGGTAGATGCCTTCCAGGGCCGGCAGAAAGACTGCATCATCGTTACCTGTGTCAGGGCAAGTGCTGTGCAAGGCTCGATAGG
Seq A exon
GTAAGTAGCTCACATTTCTTTGTCACTTGTTGGGCAGCAGCTGTCACCTAGCTCCACCAGTGACTGCCCTTAGAGCCCTATCATTTGTTTTATTCCTTTTCTTTTGTTTAAAATAGTGGTTCTCAATCTGTGGTCACGACCTCTTGGGGATGTAGATAACCTTTCACTGGATCACATATCAGATATCCATCCTGTCAGATAACTTACATTATGATTCACAACAGTAACAAAGTTACAGATAGGAAGTAGCAACAAAAATAATTTTATGTGTGGGGACACCACAACAGGGAGAACTGAAAGACCAGCGGGGTGGGGAAGACCCCCACTCAAATCTCGAGACAACGCAACCCCCAAAAACTCACGAGAAACCGGTCTTGATGTAATGAACAAGAGGTGTATTTAAGGAACCAGAGCTCTGGGGACGACACGTACCTCACACAGGAGACAGAGGAGTTGACCCCGAGCCCAATTAGGGGAAGGGATTTATAGGGAAAATAACATAGGCAGTTGGCAATAGTCACACAAAGCAAAGCAATTTTACTATTTGTTTACATTGGCGCACATGATCTAGCTTGGGCTCAGTCCAACTCCAGGCCACCCTGCCTCTGGGGCGAGCTGACCCCAACTCTTTTTCCTCAGGACTGGTAAGTCAGGCCTTATTGAGGCCAGTGGTCTATGGCCGGACTACTTCCCCATAACATGTGATATTATTCTTTTGTGAGGTGCACTGGCCCTCACAGCAGGGACAGTGGGGGATAGTTTAAAAATCTTTATTCTTTCAGAACTATATAAAAGGGTTTCAGCATTAGGCAGAACCACTGTAATAGCTTAGCCATTGAGATGGCTTAGTTGGTAAAGTGCTTACCATACAAGCATAAGGACCTGAGTGTGACTGACTGTCCAGTACCCATGCTAAAAGCTGTGCATGATGGTGCCTGACCTGGGACAGAGTACACCCTGAGAGTGAGCTCACAGAAATAACTTTGTCGTTGCATAG
Seq C2 exon
ATTCCTGGCAAGTTTGCAGAGATTGAATGTCACCATTACACGAGCCAAGTACAGCCTCTTTATCCTTGGACATTTGAGGACTCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013491:ENSRNOT00000017984:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(16.3=100)
A:
NA
C2:
PF130871=AAA_12=PD(12.9=86.7)
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:
ACCTGCAGAAGTGGATACGGT
R:
CAGAGTCCTCAAATGTCCAAGGA
Band lengths:
184-1181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]