RnoINT0111678 @ rn6
Intron Retention
Gene
ENSRNOG00000008798 | Pipox
Description
pipecolic acid and sarcosine oxidase [Source:RGD Symbol;Acc:1311347]
Coordinates
chr10:64963176-64963956:+
Coord C1 exon
chr10:64963176-64963334
Coord A exon
chr10:64963335-64963880
Coord C2 exon
chr10:64963881-64963956
Length
546 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
3' ss Seq
AGGTGTGACTTTCCTTCTAGAAT
3' ss Score
7.53
Exon sequences
Seq C1 exon
GTGTGCTATCACCATGGTGACAGTGTGGACCCAGAGGAGCGGGACTGCCCCAAAACCTTCTCAGACATCCAAGACGTTCAGATTCTATGCCACTTTGTCAAAGATCATTTACCAGGCCTGAGGCCAGAGCCAGACATCATGGAACGCTGCATGTACACG
Seq A exon
GTAAGCAGGCTGCAGGCTGTTCCAATCTGCAAAATGGGGGGTGGGGGTGGAGGTAGACAGACCTATGGCTGGCCAGGCCTGACTCCATTTGACCTCTGACCCAGTGCATGACTTTCAACTAATTCCTGTGTGTTGGTTCACCTCTATGAGAGAGGGGCCTGTTAAAGATTATTCATATTCCCTTTTTATTAGGCGGTGAGGCTTTTGCCTGGCAGTCCTTCCCTAAATTTCCCAGAAGAGCTCTAAAACAGTTCTTGGCAAGATGTTCCCAGTTGAGCAGGCCTTGGGGACAAAGAGAAGAGACAGATGCCACCAGGCCCGAGGCATCTTGGCTCAAGTTAGTTCACAAAGATGACAACCTACTGTGTCCATGGCACCGTAGGAGAGTGGCAGCTATTCAGTGAGAACAGAGGAGATTGGGCAAGCAGGGAACAGACCCCAGCCCCATCCAGTTCTCTCTCGAAAGAGTCCCCAGCCAGTTCCTTCCAGCCAGAGCCTATAGATCCTACCTATCTTCAGAGGACACAGGTGTGACTTTCCTTCTAG
Seq C2 exon
AATACTCCCGATGAGCACTTTATTCTTGACTGCCACCCAAAGTATGACAACATTGTCATCGGTGCTGGATTCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008798:ENSRNOT00000012154:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(14.6=100)
A:
NA
C2:
PF0126619=DAO=FE(7.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGTGTGGACCCAGAGGAG
R:
GAGAATCCAGCACCGATGACA
Band lengths:
215-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]