RnoINT0001340 @ rn6
Intron Retention
Gene
ENSRNOG00000056177 | AABR07010085.2
Description
NA
Coordinates
chr2:122715308-122716888:-
Coord C1 exon
chr2:122716598-122716888
Coord A exon
chr2:122715523-122716597
Coord C2 exon
chr2:122715308-122715522
Length
1075 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAT
5' ss Score
4.7
3' ss Seq
CTGCATTCAATTTGCTGTAGGCA
3' ss Score
6.04
Exon sequences
Seq C1 exon
AGTGATGATCTTACTGCAAAACTGGAAACTGCAACGTCCAAATGTCTACATCTCTATAAGCAAAATCAGCTGCTCCAGCGGGAGTTACTCTCTATGAAAATGATACAAAGGAAATATGAAAAATTAAAGAAGCATAAAAAGAAGTTAGAACAAGAAATAGCTAACCTCAGAAGTCACATGGAGCAGCATATGATAGAGTGTGGTCAAATAGAACAGTATAAGTGGGAAATCGAAGAGAAGACAAAGCAGGATTTGGTGGAAAAATTAAAACAAGTCAACCTATTCTTGCAG
Seq A exon
GTTAATTATATGCAATATGTCTTCATTCTTTTCACTGCAAATAATAGTCAGTGTGTGCACATTTTATGCATGCTTCTACTTCTCATGTTACAAGCTGCTTTATAAATGTTTAAGAAATGGCGGGAAAAGCCAGAGGTTCAGGAGGAGCAGGTTGAAACAGAGTCTTCCAGACAGGACAAACCCACAGTTTTCATAAACTCACAGCAGGTGTGATAGCCAGCAGGAGACCTGGGCAAGAACAAATCAGTCCACATTTTAACTGTGTGGGAGGAGCTTCATGCCCCTCCTGCTAACTAAGGAGCCATGGACAGTTGATGGTGTCTAGGGAGGGGAGAGTTGTTCTTTGTGAATGCAACTCCCAGTAAGTCAACCATGTTCAGTGGACGGCCCCACATGCAGGAGTATATGATCAGCACAAATTGAGACATGTTTTTTTTTTTTAAATGACAATGCGAAATTGTAGGAGGAGTTGAAAGGAGCAGAAGAGACGATCAAAATTCTAGGAAACTCTCAAAGAATAAAAGTGTTTTGTTAGAAATTTTGGAAGGAAAGTGATGCATGTTTTCCTTTGAAGTAGTTCTGTCAGTGTATGTAAACTGATCATGCAAAACTATTGTTCTTAGAGAATCATTTGATGTTTTAGACTAGCGGGCATAAAACCTGACTTAGGAAGAAAAGGAGAAACTATGGAACAAAAATCACACTTTGAATTCAAGCTACCTTGGTCAATTTATTAAATTTTGAGTTGGTATTATTTTGTGACTTGTCAGATTGCGTGAGTATGAACATGGAATAATATTGATCTGAGGCCCCAGTTCTTTGGTAGGACATGTGCTAAGCACATGTATTCAAGTCTCAGCACCTCAAAAGGTTATAAAGGTAACAAATAAGAATGATTATACTTTCAAATTCAAGTTTGACATAACTCAAATTAATGAAAAATATTTGGAATTTAGCATTGTTTTACATATTTAAATGCATCTGTTAAATAACTGGTCGAAACAAAAGGAAATGGGTCACGATAACTCCTGGAGCTACAGTTATTTTTAATCTGTCTGCATTCAATTTGCTGTAG
Seq C2 exon
GCACAAGCAGCGTATGAGGACAAGCTAGAGAAGCTAAGACACAAACAGAACGCTTCGGTGCGAACTCAGATGGAGCTCAGAATAAGGGACCTGGAGTCTGAATTCTCTAAGATGAAAAGCCAAGTTGACTGTAATCAAATAGAAATGGAAAACTACAAGCAGCTCTACCTAGAAGAAGTGAAAATTAGAAAATCGTTGTCAAATAAATTAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056177:ENSRNOT00000080181:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.042
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120013=DUF3496=PU(48.1=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGAAACTGCAACGTCCAA
R:
GAGCTCCATCTGAGTTCGCAC
Band lengths:
349-1424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]