RnoINT0133861 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196514255-196515338:-
Coord C1 exon
chr2:196515137-196515338
Coord A exon
chr2:196514329-196515136
Coord C2 exon
chr2:196514255-196514328
Length
808 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
TCTGTTTCCTTTTCCTGCAGATT
3' ss Score
12.68
Exon sequences
Seq C1 exon
GGCTAGGAAAGAAATACAAAGTGAAATTTGACAACAAAGGAAAGAGTCTGCTGTCTGGGAACCATATTGCCTATGATTACCACCCTCCTGCTGACAAGCTGTTTGTGGGCAGTCGAGTGGTGGCCAAATACAAAGATGGAAATCAGGTCTGGCTTTATGCTGGCATTGTAGCTGAGACCCCTAACGTCAAGAACAAGCTCAG
Seq A exon
GTACCCAGACAGGGATTGTAGATTGTAGAGGAGTAGGGGCTGGGAGCATGGTGCCCATCTCTTATACTGTGGTCAGCATTTCACTGTTAGCTTTTGTGTCCTCAGTGTCTTCCTTATGATCGGAAACCGTGTCTCTTTTTTTTTCATGTCATTCTTTGTGTGTGTGTGTGCATGTGTGTACTTTTTTATTTTAGACTTCTATACCTTGCTCAGACTGCTATCACACATCTTTTTCTTCTTTTTAACAAGTTGAAGAAAGTATCAACAGTGATTTATCTGTCTTACTTTATGTGTATGGATGTGTTATTTGTGTGTATGTATATACATCACATGCATGCCTGAAACCTGCAGGATCTAAAGGAGAATGTTGAATTCCCCCGCAACTGGAGTTACAGATAGTTGTAAGCCATTATTTGGGTGCTGGGAACTGAACTTAGTTAGGTCCTGGAAGTGATTATGGTACTCTTAACTGCTGAGCCATCTCTCCAACTCCATTATCACTTATGTTCCTAGATTGGTCTCAAACTCACAAACCTGCCTCTGGCTCTTGAGTGCTGGGATTGGAGAAATGTCTCATGCATGTCAACAGGTTGCTGTGAACCTTATAAAAAGCCTCCTGTTTCTCCTTCCTGAGAGCTGAGATTAAAGGTGTGTGTCTCTGTGCCTGGAAGAAAGAAAGTGTTTTTTTAGTATAGGGGAAAATAAAAGGAGAGTGGACTAGTCTGTGTTTCAGAGAATGAAAAGTATAATAAAGGACCCTGTGATAAACATTCTCTATAACCTCCATGTCTGTTTCCTTTTCCTGCAG
Seq C2 exon
ATTTTTAATTTTTTTTGATGATGGCTATGCTTCCTATGTCACTCAGTCCGAGCTGTATCCCATTTGCCGACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF150571=DUF4537=FE(55.4=100)
A:
NA
C2:
PF150571=DUF4537=FE(20.7=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:
GGCTAGGAAAGAAATACAAAGTGAA
R:
GTCGGCAAATGGGATACAGCT
Band lengths:
273-1081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]