RnoINT0133853 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196496919-196498089:-
Coord C1 exon
chr2:196497924-196498089
Coord A exon
chr2:196497131-196497923
Coord C2 exon
chr2:196496919-196497130
Length
793 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGTC
5' ss Score
1.27
3' ss Seq
TTTTTTTTCTTTCTTTCTAGGAC
3' ss Score
14.01
Exon sequences
Seq C1 exon
GATATCCTAACACTGTCCAGCAGCACAGAAAGTGAGGGGGAAAGTGGAACCAGCCGAAAGCCCACTACTGGTCAGACTTCAGCCACAGCAGTTGACAGTGATGACATCCAGACCATCTCTTCTGGCTCTGATGGCGATGACTTTGAGGACAAGAAGAACTTGTCGG
Seq A exon
GTAGTCTGAAATGTTTGGATGTGGTAGGAAGGAACAGGAAAAGTAGGAAAAACATTTTTAAAAGAAGGAAATGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCAGTCCCCAGCTCCGAAAAAAAAGAACCAAAAAAAAAAAAAAAAAGAAGGAAATGATCCAGATCCCAAGAGTTGGGCAGCCTTGCCAACTCTGCTACACTGTTAGCTGCCATGTGCCCTTCCTTTCTTCCCAGTACCCCTGCTTTTCTTCAGCTCCTTAATTCAATATAACTCGTGCTTTAAATAAAGTATGATACAAAATCTCAGCCTGGTGGCCCAAACCTGTAGTCCAACATCTGGAAAGCTGCAACATGCTTGTAGGTTTGAGACCCACCTGAGTTACATGGAACCTCATCTAAGACAATGTGACTTATGGTCTGCCCCACCCCCAAGACCAGGTTGTCCTTGAATTCAAGAGATCGCCTACCAAGAGCTGGGATCAAAGGTGTGCAACCAACCACACCTGGCTAGTGGTTTAGGGTCTTAACATGAATTTAGCTAGCTTTTTGCTATCCCTGAACTGCAATGGTTGGAATAAAAATGAGGAGAAATGGGGCATGGTGGTAACATCTATGATTCTAGCACTTGGGAGAAAAGGGGCCCAGGAGGATCACACATTGATATCAGCCTAGCTTAAAGTGAAGGTGGTAGAATGAATGTCTAGTTAGGAGTGGACGATTCCTCACCACCACCACTCCTTTTTTTTTTTCTTTCTTTCTAG
Seq C2 exon
GACCAACAAAGCGTCAGGTGGCAGTAAAATCAACCCGAGGCTTTGCTCTTAAATCAACCCATGGTATTGCCATTAAATCAACCAACATGGCTTCCGTGGACAAGGGGGAGAGTGCACCAGTTCGTAAGAACACACGCCAGTTCTATGATGGTGAAGAGTCTTGCTACATCATTGATGCCAAACTTGAAGGCAACCTAGGCCGCTACCTCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.282
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(12.2=100)
A:
NA
C2:
PF0085623=SET=FE(15.5=100)
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:
CTGTCCAGCAGCACAGAAAGT
R:
GGCCTAGGTTGCCTTCAAGTT
Band lengths:
355-1148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]