RnoINT0133845 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196510361-196510775:-
Coord C1 exon
chr2:196510625-196510775
Coord A exon
chr2:196510520-196510624
Coord C2 exon
chr2:196510361-196510519
Length
105 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
TCTCTTCTCAATCCCCTTAGAAG
3' ss Score
7.92
Exon sequences
Seq C1 exon
GTGCTGTGAGGAGCAAAGGTCCTGTTGTTCAGTACACTCAGGATCTAACGAGTACTGGAATCCAGTTTAAGCCCATGGAGCCCCTGCAGCCTATAGTCCCACCTGCCCCGCTTCCCATGCTTCCTCTTTCCCCCCAGGCAGGCGACAGTGA
Seq A exon
GTAAGTGCTCGTCAATCTTTTTACTTCCAGGTATTCTGTTTGTTTGTTTTTTACCACACATACCTTCGGAATCCTTACTATATGGTCTCTTCTCAATCCCCTTAG
Seq C2 exon
AAGCTTAGAAAGCCAGCTTGCTCAATCACGGAAGCAAGTAGCCAAAAAGAGCACATCATTCCGACCAGGATCTGTGAGTTCTGGCCATTCCTCCCCTACTTCGCCCACACTCAGTGAAAATGTACCCCCTGGGAAAATTGGAATGAACCAGACATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.882 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCAAAGGTCCTGTTGTTCA
R:
GAAGTAGGGGAGGAATGGCCA
Band lengths:
244-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]