GgaINT0112305 @ galGal4
Intron Retention
Gene
ENSGALG00000017006 | SETDB2
Description
SET domain, bifurcated 2 [Source:HGNC Symbol;Acc:HGNC:20263]
Coordinates
chr1:168512158-168513773:+
Coord C1 exon
chr1:168512158-168512277
Coord A exon
chr1:168512278-168513603
Coord C2 exon
chr1:168513604-168513773
Length
1326 bp
Sequences
Splice sites
5' ss Seq
TGGGTAATA
5' ss Score
4.95
3' ss Seq
ATTTTGCTTCATCTTGACAGGAT
3' ss Score
7.7
Exon sequences
Seq C1 exon
GTCAAAGTGTGCATGTCTACAGCTAACTGCAAGAGGCTGCCGTAAAGTTTCTGTGTCTCCTAATGCTAAAATGTCTCGTGGATACAGTTACAAAAGACTGGAAGGGCCTGTTCCTAGTGG
Seq A exon
GTAATAAAGACAGAGCTGTTTTGTGTACTCTTTACAACTGTATTGTCTCTGAATTACCAACACCTTAAATTGTTGTCAGTTTTACTAATTGATAAGGATGATTTTTGCAGAAATAACTGATGTGTCTTGAATAAGAGAGATAAAAAACACTCTTGTGCTGCAGTTTTCACATCTTAGTTCAGGGCCAAGAAGAGTAACACAGTATTATCTCGTTGAGAAGCTCAGGACTTACCTGGCCCTTGTCCTTGCTCATTCATGCAATAAGTGGGAAGGAAATCTGCCACAAGGAAAGGAGACGTATTGCAGGATCTACTGCGAGATCATCACAGCCAGTATCAGTCTAAGAAGTGGGAGGAGATAACCACCCCTTGTTTTTGCACAGTGACTTGTTCAGATATTTGCTCTGTAGGATCAGACTCCTAATGACATAATAAGCTAGTTGCTTTTGCTAGATTTGGAATGGAGTAATGTGGGGAACTTTAGGAATGAGGAAGTACTATGCTTCCAATTTCTACCGTGATAGCAGTCCCCACTGTAGTGCACTGCAGTCCCTTTGGCAGGCCAGGTAGCTGGGGATGGTGTGCACAGGTGATGGAAGAAAAGAATTATTGCTCCCAGTAAGGTAGACAGTAAGCCATCTCGCAAGAGTCTCCAAAGCTCCCAGCGCTTCAAGTGTTTGCTCTTCCTCTTAAAGTCTAAGAAGGAGCTCTGAAACTGTTATTGGACTCCCAGCAGCATAAAGTTAGCCACATGGCCTGTGGGAAGGTGCCAGTAACCTCAGGAGTTCAGGAGAGGAGTTTTGCAAGGTGGCTTTCTGCAATAGCCGAGGGATGAACTCATCAAGGCTTAAGGAACCCTTTTCAGTCCTTGTTACTGTACAGTGTTTCCTTACAATTGGCATGCAGGGTTAAAGCTGCAAGTGAACACACAAACAAATGTAAAAAAAAGCACAGTTCTGAATTCTTTTAGTGGCATTTGGTTAAATCCTAAACTCCTGATAGCTGCAGTGAGGTCTCGACAGACAGGTTGTTTTGCTAAAGTCTGTTCCAATACAATTAGCTGCCTCATTAAGATTTCTGCACCTGTGTGACTTTCTTCTGTAAAATAAAAAGGTGGCATTTATTTTTTGTCGTCTTGTTCAAAGATCTGGCTGACGAACTCTTAAAACTGATGAGTCAACAGTCAAGAATGTCGTGAGTTTCAGAGCACTGCCGTGCAGTCAGTTTTAGCCAGGCTCTTTATCTTTTCAGCCTTATTTGTGCTCAGGGGTGAAATGAATAATAGCGACTTTACTTTCCTGTGTTTTATTTTGCTTCATCTTGACAG
Seq C2 exon
GATTTATGAGTGCAGCGTGTCATGCAGATGTGACAAGATGATGTGTCAGAACAGAGTTGTACAGCATGGCATTCAAGTTCGGTTGCAAGTGTTCAACACAGAGAAGAAGGGTTGGGGTGTCCGCTGCCTGGATGACATCGACAAGGGGACGTTTGTTTGTACTTACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000027470:7
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=0.006
Domain overlap (PFAM):
C1:
PF0503311=Pre-SET=PD(37.0=82.9)
A:
NA
C2:
PF0503311=Pre-SET=PD(15.5=31.0),PF0085623=SET=PU(76.9=34.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAAGTGTGCATGTCTACAGCT
R:
AGTAAGTACAAACAAACGTCCCCT
Band lengths:
286-1612
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]