RnoINT0133847 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196507794-196509753:-
Coord C1 exon
chr2:196509085-196509753
Coord A exon
chr2:196507911-196509084
Coord C2 exon
chr2:196507794-196507910
Length
1174 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
TACCTTCTCTCTCTCTGCAGATC
3' ss Score
14.38
Exon sequences
Seq C1 exon
ATCACCTTCAGCCTCTGTAACATCTACCCCAGCACCTGCAGCCCCTTCTGGGCCTCCAGCCCCTCCAGGGCCTCTTGCTCCTCCTGGACCACCGGCCCCTCCAGCTTTCCACGGCATGTTAGAGCGGGCACCAGCTGAGCCCTCCTATCGTGCCCCTATGGAGAAGCTTTTCTATTTACCTCATGTCTGCAGTTACACTTGTTTGTCCCGGATTAGACCCATGAGGAATGAACAATATCGGGGCAAAAACCCTCTACTGGTCCCACTATTGTATGACTTCCGGAGGATGACAGCACGTCGCAGAGTTAACCGCAAGATGGGCTTCCATGTAATCTATAAGACACCCTGTGGTCTCTGCCTTCGGACGATGCAGGAAATAGAGCGCTACCTTTTTGAGACTGGCTGTGACTTCCTGTACCTGGAGATGTTCTGTTTGGATCCATATGTCCTTGTTGACAGAAAGTTCCAGCCCTTTAAACCTTTTTACTATATTTTGGACATCACCTATGGCAAAGAAGATGTTCCCCTGTCCTGTGTTAATGAGATTGACACAACTCCCCCACCCCAGGTGGCCTACAGCAAGGAACGCATTCCTGGCAAGGGTGTTTTCATTAACACAGGCCCTGAATTTCTGGTTGGCTGTGACTGCAAGGATGGGTGTCGGGATAA
Seq A exon
GTGAGTTGGTGGGGTGTGCAGACATTGCTGTCTCTGCCTTCAGGTTTAATACAGTTGCTTTTCTTTTTATTCTTTTATTCTTTTTTATTTGTATTGCTTTTTCTATATTCCCTTTCCTCTTTCAGCTAGAATTCTGCTAAGCCATTGTGAAATACAGATACAGAAGCTGGGTGCAGTGGCACAGACCTGTAATCTCAGCATTTGAAATTCAGCACTGCAGCAGGTTCATCTTGAGCTCTGGGCCAGCCTAGGCTAGCTACACAGTGAGATCTTACTGAAAAGAAAAAAAGAAAGACATGAGATAGGGACACCAGGGTCTGATAGTCTTATATGGCCCCATGAGTTACCCTGGGAATTGTTCTGTTCCTATCCCCACTTGCTATTTTTGTCTCCCCTTTTCTTTCTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTCCGGAGCTGGGGACCGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAATTCCCCAACCCGTCTCCCCTTTTCTTAAACTTTCATCTTGTCTCTGTTTTCTGCACTATGATTCTCTATATCTACTCTACTCTCACTGTATCTTATTCATGCTTGTTCTTACTACCTTTACCCTACCCCCATCCTTTGTGGTTGATTTTTGCCCTAAGGCTCAGGTTTGTTGATGGCTTAAAGGGCTATTGGGAGTCCCTGGTGACTGAGGGTGAGGCCTGGAAGTTCCTGGCAAGTGAAAGAGTTTACATAACCAAGAACTGCTTAAAAGTATGGCTTTTAGCTCCACCTTGCCATAGTAGAGCTTGCTTCTTGCTCAGCATGGCTCTGGAGGTTAGAGCCTTTCTATTTCTCAAAATTTAGGCAGTCCTTGCCAACAAGGTCACCCACTCAGCAGGTGCACCTCCTTACCACAATGGGCACCTTGGGCATGGAAGAGCCTGGCTTAAGATGAGTGACTATAGCTAGCAGGTCCTAAGTTGTGTGTTCAGCTCAGTTTTTATTTAAGATGGCTCAAGCCAGCCGGAACTTACTAGCTGAGGATAGCAGTTAACCACTGATCCTCCAACTTCTATGTCTCAAATGTTGATTACAGATGTGGATCACTATGCCCAGCCCTCATCCTCATGAACCTAAGAACCACAGCTGTAGTTACCTTCTCTCTCTCTGCAG
Seq C2 exon
ATCCAAGTGTGCCTGCCATCAGCTCACTGTCCAGGCCACAGCCTGTACCCCAGGGGGTCAGATCAACCCTAGCTCCGGCTACCAGCACAAAAGACTAGAAGAGTGTCTGCCCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0142914=MBD=WD(100=33.5),PF0503311=Pre-SET=PU(49.6=25.4)
A:
NA
C2:
PF0503311=Pre-SET=FE(33.9=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:
AGACTGGCTGTGACTTCCTGT
R:
CCGGAGCTAGGGTTGATCTGA
Band lengths:
352-1526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]