RnoINT0106341 @ rn6
Intron Retention
Gene
ENSRNOG00000013136 | Oxsr1
Description
oxidative-stress responsive 1 [Source:RGD Symbol;Acc:1310466]
Coordinates
chr8:127954558-127956651:-
Coord C1 exon
chr8:127956550-127956651
Coord A exon
chr8:127954692-127956549
Coord C2 exon
chr8:127954558-127954691
Length
1858 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCAAAATTCTTACTACACAGGTT
3' ss Score
5.76
Exon sequences
Seq C1 exon
GTTCGAGGTTATGATTTTAAAGCTGATATCTGGAGTTTTGGAATCACAGCGATTGAACTAGCCACAGGGGCAGCTCCTTATCATAAATATCCTCCAATGAAG
Seq A exon
GTGAGGCTCACGTTCTAAGTATTATTCCCCGTCCAGTCCGGTGACTCTTCAGAGCCTTTTATGTCTGTCAGTCATAACCATAGTTACTTATTTTCCTAGAATTTTTATGTATATTTTAGCAAAATACAATCTTTCTACACTCATATAACCGTTTTTACTTTGTATTGTATAGGGATCAAGCACAGGATAAAGCATTTTTGGTTGTGTATTTATGTGATAAGTCTGTTCACGATGTCATCACCACACCCCGACTCTTCCTTGGGTTCAGAACCACTGACCTTTGGTTTAGTTCTTCACAGAATATGTACGGATTGCTGAACTTGCGTCCCTTTGCTGTCCTGCGCACACAGCGCTATTGGTTCTGACTGCATTTTGGTGTCTGGTATCCAGCCTCCTCGGTTCTCTACTCATCTGCCTTTCACAGGCTCTGCTGGCAAAGCAACTAAGGTTGCAGCGGAGGCAGGGAGAATGCGAACTAAGAGTGTGAATGGAATGTAGCCTTGCTTTGTTACTTAAACAGACAGAAGTCAAGGAGACACGGGGCGAGCAGTAGGTGAAGCTAAGGAGTCCATGCAGTTGTTTGGCAATGGAAGAAGTAGGTCTGTGAACATGAAGAGATAAGGAATTGTAACTGAAGGATGTAGCAGTGTCTGTCGGCAGTGGGCACTTCTGGGGATCCACCATTTTTGTATAGCTTTTAACTAATGTCCAGTCCACACGGGAGCCTTGGGCTCTCATCAGCTAGTCTGTTTCTTGTGGTGCTGGGCATTGAGCCCCAGGTCTCATACATTCTAGACAAGTTCATATTATCTATCCCCTGACTCTAAAACTCCACCTAGATGGTAACTTGTATATGTGTACCTGTGTGCATGTGTTCATGTGTGCATGCATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGGCCCATGTATGTCTAGGCTTTTAGAGACCAGAGGTTTTTGTCAAATATGTTCCTCAATCACTTTTTGCCTTATATTTTGAAACACGGCTTCTCCCTAAACCTTGGAGCTTGTCAATTTGGCTGGACTGGCTGGCCCAAAGCCCGCAAGGACCTCCCCCACCCCACCCCCCAGCCTCACTCCCCCTTCCCAGCTTGGATTTCAGACTTAGACCACCACACCCACCTTTTTTATGTGAGTTCTGAAGGGTTGAACTCAGGTCCTTATACTTACACGGCAATCTGAGCCATCTCCAGCCCCTAGATGTCAACTGCTAGAAAGTAAAATCTGCTTGTGTGTTGAAAGGTTTTATCCTTATTGAAAGTTCTTCATGTGTTTATACTATACTAAAAAATTTTGCAGGTTTATTGGTATACTTTTGTGGGCTACTTTGTTGGGTTCCTCCTTTCCAGCCCTAATTTCACCCCGATCCCTTCCAACTCCCATCACTAGGTAGGAAAGAAAGAAGGTTAGAGGGGAAAGGGGGCATAGGTCTCTTTAGACTACTTCCCACTGCTTAGGGAGTTCCTTGGGGCGAGTTCAGTTTTTGTCGTTAGGATATCCAATTTTTTCTTTTCATCTCTTTGCTTACAACCACTGGACAAGCTACAACAACAGAAACCAGCAGTAGCAGGGAGAGCAGCAGCCTCCACAGGCTCTCCTGGGGTTCTCCCATTGGTATACTCTCAAGAGTACCCAGAATTCCAGTCGTAAACTATCTGCAGCTGGCAAAAATCACATCCCTCCTAGAGCATGAGGCAAATCATAGTTAGCTGCTGTAGGCACTCAAAAGCCTGTGTCCACACCTGGGATTAAAACAAAAAACAGTCACATAGCATCACTGGGTTTTTAAAGAAACCAAAATTCTTACTACACAG
Seq C2 exon
GTTTTAATGCTGACACTCCAGAACGATCCTCCTTCTTTGGATACTGGTGTTCAAGATAAAGAAATGCTGAAAAAATATGGAAAATCATTTAGAAAAATGATTTCATTGTGCCTTCAAAAGGATCCAGAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013136:ENSRNOT00000018056:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(12.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(16.0=100)
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:
GTTCGAGGTTATGATTTTAAAGCTGA
R:
CCTTTTGAAGGCACAATGAAATCA
Band lengths:
223-2081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]