GgaINT0112311 @ galGal4
Intron Retention
Gene
ENSGALG00000017006 | SETDB2
Description
SET domain, bifurcated 2 [Source:HGNC Symbol;Acc:HGNC:20263]
Coordinates
chr1:168518485-168520020:+
Coord C1 exon
chr1:168518485-168518816
Coord A exon
chr1:168518817-168519931
Coord C2 exon
chr1:168519932-168520020
Length
1115 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TCATGTATTTTGTTTCACAGCAC
3' ss Score
8.17
Exon sequences
Seq C1 exon
GATCCTCCCAGAAGCAGAGGGTAGAAGACCTGGTGGAAGTTGGACAGACGGAGCCTGCTGAAATGGACAGTGCTGAATGCAGAAGGAAGAGTCTGTCTCTGAAGGGTGTTGCTTGTGGCAGATCAGACGTGCTGAACGATAAATACGTTGTGAAGCCATCCACAAAGGTTCTACAAAAAGCTGACTGCGTAGAGGAAGCTCACAGACAGGCAAAACAAGGCATATTTTGTGTGGAAGCAGACGGTGACAGAACGCTTCTGAAGAATGCTAACAATGAAAATATCTATATACTAGATGCCACAAAAGAAGGAAATGTGGGTCGTTTTCTTAAT
Seq A exon
GTAAGTAAAAGCTTGCATGTGTTCTCTTGCTTGCCTTAGCTTACATGAGTAATGTGTTTTCATGAGCCAGAAAGCTTTTGCAAAAGTCTGTTCTGTCATAACCCAAATATATGGTGGGGTTTGTGTGAAGGCAATGCGGTGCTCCCTGCACTCTGAAGTGACAGGACAGCAGATTGGCTCGTGCCAGCTGTGAGGGCTTCCGTAACATGTGTGGCCTATACTAGCTGTAGGTTTTGGCAACACTAGGTTACAGAGTGAAATATTCCCAAGTAATGAGTGACACTTGTTTCCTGAATTTTAGAACATCATTTTGGGAGTGTGGGGTATCTGGAGATCAAATTATACATTCTACTGACCCACAGCCCTTCTCCCAGCTTCACTTTTTATTCCCAAAGCACTATAAAGTCTGGCTCATGCTGGTTTAAAGTAAGTGCTGTGATATTGTAGGAAATTCTCGAATATGAGTGAACTGTAGAAAAAAGTGATCTGTCCTACTGTGAGATACCTGGTTAGTGAGTCTCTCAACTTTGACTTAACAAGAGATAGCAGTGATTTCCAAAGAACCTCCAGCTAAGATGAATGCTTCATACACGCATCTGTATGCACTCAGCAAGTAACTTATTTCTCTCTCTTGGCATGGATACGTGTCTTGCTGCAAAATCCTTGCGTGTATTTAAGTGTTACCTCCTTGCAGAGGTAGTGTGGGGTAAGAGTTGTAGTGTATCTTGCTGAAACCTTCCCTCTTCATCCATGACCACACATGTGTCCCTATTACTTGCTTCACTGACTGCCATTGAAATGCATGTCATGTACTGACTACTTGTACTGTGTCGTAAATCAGAGATGATTTCGCACCGTAAATCACTGGAAAACAGCTTGATAAAAAGGCTTTGATTTTCCTAAGAAAGGGTACTTTCATAGTATGATGGAGATGAAACATTAGAGACACTGTTAAACAAAAATCAGTGGTAGTGGCATTAAGTAACAGTAATTGTGTTGACTGGAATAGGAGAGGAAGGCACTACTTGTAGCAGTGACAAACCTGACACAAAATAGAATCTTCAGTGGAAAACCTGGTGTTTCACTGTTTCTAATTCATGTATTTTGTTTCACAG
Seq C2 exon
CACAGCTGCTGCCCCAATCTCTTTGCACAGAGTGTGTTTGTAGAGACGCACAACAGAAGTTTCCCATGGGTTGCATTCTTCACAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000027470:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.261 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0085623=SET=PD(28.4=55.9),PF0085623=SET=PU(39.7=26.1)
A:
NA
C2:
PF0085623=SET=FE(39.7=100)
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:
CCTGCTGAAATGGACAGTGCT
R:
TGGGAAACTTCTGTTGTGCGT
Band lengths:
345-1460
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]