RnoINT0133855 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196496623-196497130:-
Coord C1 exon
chr2:196496919-196497130
Coord A exon
chr2:196496712-196496918
Coord C2 exon
chr2:196496623-196496711
Length
207 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGA
5' ss Score
3.37
3' ss Seq
TGTCATCTTTAAACTTACAGCAC
3' ss Score
7.68
Exon sequences
Seq C1 exon
GACCAACAAAGCGTCAGGTGGCAGTAAAATCAACCCGAGGCTTTGCTCTTAAATCAACCCATGGTATTGCCATTAAATCAACCAACATGGCTTCCGTGGACAAGGGGGAGAGTGCACCAGTTCGTAAGAACACACGCCAGTTCTATGATGGTGAAGAGTCTTGCTACATCATTGATGCCAAACTTGAAGGCAACCTAGGCCGCTACCTCAAT
Seq A exon
GTGAGACTGAAGCACCTATAGGTGGAGGGTTCTATTTCTAACTTTTTAAAGATGTTGTATAAACCTACCTTTGCTTATAAGGTGACCTCAAAGAGTAAAGTGGCTTTCTCTCAAAACATCACTGCTATAGTATGTAATGGGGTAGAGATCAGAGTTTACATATCTGACGCCTCCCTGGTTGAATGACTGTCATCTTTAAACTTACAG
Seq C2 exon
CACAGTTGCAGCCCCAACCTGTTTGTCCAGAACGTTTTTGTGGATACCCATGATCTTCGCTTCCCTTGGGTGGCCTTTTTTGCCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.282 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(15.5=100)
A:
NA
C2:
PF0085623=SET=FE(6.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCAACAAAGCGTCAGGTGG
R:
AAAAAGGCCACCCAAGGGAAG
Band lengths:
292-499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]