RnoINT0133849 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196499248-196500732:-
Coord C1 exon
chr2:196500563-196500732
Coord A exon
chr2:196499877-196500562
Coord C2 exon
chr2:196499248-196499876
Length
686 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TCAATTCTCTTTATTCGCAGGCA
3' ss Score
8.72
Exon sequences
Seq C1 exon
GGTTTATGAGTGTAACAAGCGCTGCAAATGTGACCCAAACATGTGCACAAATCGGTTGGTGCAGCATGGACTGCAGGTTCGACTACAGCTGTTTAAGACACAGAACAAGGGCTGGGGCATCCGCTGCTTGGATGACATTGCTAAAGGCTCTTTTGTCTGCATTTATGCAG
Seq A exon
GTTAGTGATAAAGAGAAGGGTTTTTACCCTATGGGGTTTGGGACATGGAAGGTCAGGGGAAAGTTGGACATAGCAGAGTGGGCATAGTAACAACACATGTCTATAATCCAAATATTCAGAGGTGAAGGCAGAAAATTGAGAGTAGGAGGTAACCTGAGCTACATACCTAGACTGTACCTCAAAAAAACTGAGGAGTGGAAATGTAGATCAGGAGAACAATGTATGCTTAGTTTTCAGGAAGTGCTGCATTCAGTCCCTAACATCACAAAAAAGAAAGGATGGATTGATGAATGAAGCGTTGACAGTTGAATCTGGGACTAAGAGGAGATGGAGTCTCTTTTTCTATAAAGGACACGATAAGTGATATGCCTCTATAGGTAGGCCAGAGAGGGGAAAGTGCTTCGTAAATGGTGCCAGGGGATCAGATCTTGACTATTGATTGATGTTTCTTTCAGTGAGAGACCTCATTTAGATTCAATTATATCATTTTCTCCCAGAGATATTTTAGCACAGTTAGGAAGTATCAAGGTAAACAAAAGAAAATGGGAAGGGCAAGGCGACAGCTGCAGTGACTGTGCCTTAATGGCAGAGGTGAAGGTGGCATCCAATGAAAGCCCATAACATAAGATTTTACCCTGCGAGTGGGTGCAGTACTGATGAAGACCTTCAATTCTCTTTATTCGCAG
Seq C2 exon
GCAAAATCCTGACAGATGACTTTGCAGACAAAGAAGGCCTCGAGATGGGTGATGAGTACTTTGCAAATCTGGACCACATTGAAAGTGTGGAGAACTTCAAGGAAGGATATGAGAGTGACGTCCCCAGCTCCTCTGACAGCAGTGGGGTGGATATGAAGGACCAGGAGGATGGCAACAGTGGCTCAGAGGACCCTGAGGAGTCCAACGACGACAGCTCCGATGACAACTTCTGTAAGGACGAGGACTTCAGCACCAGTTCAGTGTGGCGTAGCTATGCAACCCGGAGGCAGACTCGGGGTCAGAAGGAGAGTGAACTGTCTGAGGTGACTTCAAAGGACTCCCGCGCCCCAGACCGTGGGCCTCCCCACGTCCCTATCACTCCCTCAGGATCTGTAGGGGGTTGCAATCCACCTTCCTCCGAAGAGACACCCAAGAACAAGGTGGCCTCATGGTTGAGCTGCAATAGTGTCAGTGAAGGTGGATTTGCTGACTCTGACAGCCGTTCCTCCTTTAAGACTAGTGAAGGTGGAGATGGCCGTGCTGGGGGAGGCCGGGGAGAGGCTGAAAGAGCCTCTACCTCAGGATTGAGCTTCAAGGATGAAGGAGACAGTAAGCAATCTAAAAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:15
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=0.810
Domain overlap (PFAM):
C1:
PF0503311=Pre-SET=PD(15.7=31.0),PF0085623=SET=PU(4.4=34.5)
A:
NA
C2:
PF0085623=SET=FE(46.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAATCGGTTGGTGCAGCATG
R:
GTTGTCATCGGAGCTGTCGTC
Band lengths:
350-1036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]