RnoINT0133854 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196524193-196526188:-
Coord C1 exon
chr2:196525920-196526188
Coord A exon
chr2:196524345-196525919
Coord C2 exon
chr2:196524193-196524344
Length
1575 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
TACATGTGTTCCCATACTAGGGA
3' ss Score
7.54
Exon sequences
Seq C1 exon
GGCGAAAGCATGTCCTCCCTCCCTGGGTGCATGAGTTTGGCTGCAGCGCCAGCTGCGGCGGACTCTGCAGAGATTGCTGAGCTGCAGCAGGCAGTGGTTGAAGAGCTGGGTATCTCTATGGAGGAACTTCGTCAGTTCATCGATGAAGAACTGGAAAAGATGGACTGTATACAGCAGCGCAAGAAGCAGCTGGCAGAGCTGGAGACGTGGGTGCTGCAGAAGGAGTCTGAGGTGGCTTATGTTGATCGGCTGTTTGATGATGCATCTAG
Seq A exon
GTGAGGGTTCATGGAAGCAGAAGGAAATGTCCATCTGCATCGTCCTTGGAGTGATCGTTGTTGTCGTTGTCCTAAGCACTTTATAGTTTGCCCGATTCAGTCATGTGGGACCTTACACTTCCTCTGAGTTTCCAGTGCAGAGTTGCAACAGAACACTTTTCCCCTGTGGGTAGCTGATATGTGATCAGCAGTAGGTAGGTTAAAGGCTTGAATTCCCTTGTCTTTCTCCTGTACTGAACTTCCTTACTAAGATCCCCAGGAAGTGAAGATTGTAGAGTTGCTGCTGTCTTTTCTGTTTTTCTGAGACAGGATCCCAATTCCTAGCACTTGCTGGCCTCAGACTTGCAGAGATCTGCCTACTTGTGCCTCCTCAGTGCTGCGATTAAACGATCGCTTATGTTTGTTGAGTTCATTGGGATATCATGAATAACAGCCTTGAATTTGCTCTATAGCTCAATGTGATCTTGACCAATGGATAATCCTGTTTTTTAACATTGTGAGTGCAGGGATTATAATTGTGGGCCACCATGCAGAGTTTATGTTGTGTTTGGTATAGCAGTAAGGCTAGACAATCTGTCCGTTGAGGTACATCCTCAACCTCTTAACTTATCTTTAACTGTCAAACATTAAAATTCCTAATTCTCTCAGAGTATCTGTTTCAGATTGCCAGTGCAATTTAAGATAACCAGATTGCTGATGTTCGTACTGCACTTTGTTGATAGACTAGTTAAAAACTGGTGCAGCTGTTCGTTCAATTTTTATTTTATTTGTTTATTCATTCATTCATTTTTGATACAAAGTCTCTTTACACAGTTGCCCTAGAACTCACTATATAGACCATACTGGGCTGGACTCACAAAGACCCATCTGCCTTTGTCTCTCCAGTGCTGAGATTAAAGGGATGCGTCACAACACCCAGCAAAATGAAGTTGCTATTTAAAGCTATCTTCTTAGTTCCCAAAGCCACTTAGATAATAAGTATCTGATATTAAGATTTTTGTTACAGCAAGTGGAAAAATTGAACTCTTGCAAATTGTTTCATGGACTAATTAAATGGAAACAAACATACTTTGGAACATGGAGAGCAAACAGTCTGTATTTAAATATGTACACCATCCTGTTACTGTGTTTTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGTGTGTGTGTGCGCGCGCGCCTGTGCACATGTGTTTTCTTATTTTTCTGTTGATTTTATGTTTTTTGAGACAGGGTTTCTCTTGTAACTCTGGCTGTCCTGGAACTACTTCTGTATACCAAACTGGCCTTGGAACCCAGAGATCCGCTTGTCTCTGCCTCCCGAGTTCTGGGCTCTGTTTTTGTGGTTTCTAAAGGTTTCTTACTCTATAGGCCATGTTGGCCATGAACCCACTCTATTGACCAAAGTGACCTCAAACCTAGACAGTCTTGGTACCTCAGGCTAAGTACTAGGATTACACGTATGAGCTCGTAGACTGCATAAACGTATATAAATTCTAATGTTCTTATACCGCACTTTCTCCACTGGCTTTGATTTTTCTACATGTGTTCCCATACTAG
Seq C2 exon
GGAAGTGACTAATTGTGAGTCTTTGGTGAAGGATTTCTACTCTAAGCTGGGATTACAGTATCATGACAGTAGCTCTGACGATGAAGCTTCCCAGCCTACAGAGATAATCGAGATTCCTGATGAAGATGATGATGTCCTCAGTATTGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCTGGGTGCATGAGTTTG
R:
GGGAAGCTTCATCGTCAGAGC
Band lengths:
343-1918
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]