RnoINT0111676 @ rn6
Intron Retention
Gene
ENSRNOG00000008798 | Pipox
Description
pipecolic acid and sarcosine oxidase [Source:RGD Symbol;Acc:1311347]
Coordinates
chr10:64962032-64962866:+
Coord C1 exon
chr10:64962032-64962214
Coord A exon
chr10:64962215-64962719
Coord C2 exon
chr10:64962720-64962866
Length
505 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CAACTTCCTCCTGCACCAAGACC
3' ss Score
2.29
Exon sequences
Seq C1 exon
CATGTAATTCGTCAGCTAGGAGGCATGGTGTGTGATGGAGAGAAGGTAGTGGAGATAAGACCTGGTCTACCTGTCACAGTGAAAACCACCTTGAAGAGCTACCAAGCCAACAGCTTGGTCATCACTGCTGGTCCCTGGACCAACCGGATTCTTCGTCCCCTGGGAATTGAGTTGCCTCTCCAG
Seq A exon
GTAGGGTGAGCTTGGAGACCTGAGGGTCAGTCATTAAGAGGAGAAATCTTGGAGCCAGTCAGACTTGACTTTGAGCCTCAGATCTGCCACTTCCTAGTGGACAATGTTGGGCCAATGAGTTCACCTCATTAAGCATCAGTTTTACCAATATGGGAAATAGCAGCTACCCCAAAAGGCTATTGGTGGATTAAACTATCCGGTGTTGTACACCAGAGCCTCCGGGAGACAGGCAGATGTATAGCCCTACATAAATGTGAAGTGTATCAACTCCTGAAAAGCTAGTGAAGTAGGGTTGGGGCGCTGCTATGTGAGAGAACTGAGAAGAGGGACACGAGAGGTTTGCAGACCTTTGTGAAGCATAATGTATATCCTATGCATGTGACATACGTACATGACAAGAACTAGGTAAAACCGGTTGGATATGAAAGGGCCGCAGGACCCCACCAGAACCTGCCGTCACTGACCATGGCTTCCCCCTTTATCTCCAACTTCCTCCTGCACCAAG
Seq C2 exon
ACCCTTCGGATCAATGTGTGTTACTGGCGAGAGAAGGTCCCTGGGAGCTATAGTGTGTCACAAGCTTTCCCATGCATCCTGAGTCTGGATCTGGCCCCCCACCACATCTACGGACTGCCAGCCTCAGAGTACCCAGGGCTGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008798:ENSRNOT00000012154:4
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(16.9=100)
A:
NA
C2:
PF0126619=DAO=FE(13.5=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:
TGTAATTCGTCAGCTAGGAGGC
R:
TCATCAGCCCTGGGTACTCTG
Band lengths:
326-831
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]