RnoINT0111675 @ rn6
Intron Retention
Gene
ENSRNOG00000008798 | Pipox
Description
pipecolic acid and sarcosine oxidase [Source:RGD Symbol;Acc:1311347]
Coordinates
chr10:64961527-64962214:+
Coord C1 exon
chr10:64961527-64961740
Coord A exon
chr10:64961741-64962031
Coord C2 exon
chr10:64962032-64962214
Length
291 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTGATCCCTGACCTTCCAGCAT
3' ss Score
7.49
Exon sequences
Seq C1 exon
GCGGACTGAACTCTTGTTTCTGGGAATGAAGGAAAATCCAGGATTAAAGACAATCCAGGCCACTCTGTCTAGGCAGGGGATTGACCACGAGTGCCTTTCATCAGTGCATTTAAAGCAACGCTTTCCAAACATTCGGTTCACCAAGGGAGAAGTAGGGCTCTTAGACAAGACTGGAGGTGTTCTCTATGCAGACAAGGCCCTCAGAGCCCTCCAG
Seq A exon
GTGAGGCTATGCAGCCCCAGGGCAACACAGCTCCTTTCTCTGGGCATGCTGGTCCTAGTCAGGCAGCCCTAGGCCCATGTCAGTATAAAGGTCTTTGTTCCCTTTGACTTTGGTTCTGATTTTTAAAACAAGTCTCTCTTCCTCTCCCTCTTCCTCTCCCTCCCTCTCTCAGCACACTTAAAAGGGGGGACTAGATTGTGCACTTTTGTCTGCCCTAAGTGATGGGTTCTTGGTCTCCCAGGTTGAACCATATACACAACTAAGTAATCTCTCTGATCCCTGACCTTCCAG
Seq C2 exon
CATGTAATTCGTCAGCTAGGAGGCATGGTGTGTGATGGAGAGAAGGTAGTGGAGATAAGACCTGGTCTACCTGTCACAGTGAAAACCACCTTGAAGAGCTACCAAGCCAACAGCTTGGTCATCACTGCTGGTCCCTGGACCAACCGGATTCTTCGTCCCCTGGGAATTGAGTTGCCTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008798:ENSRNOT00000012154:3
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=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(19.9=100)
A:
NA
C2:
PF0126619=DAO=FE(16.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATTGACCACGAGTGCCTTT
R:
GACGAAGAATCCGGTTGGTCC
Band lengths:
294-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]