GgaINT0112307 @ galGal4
Intron Retention
Gene
ENSGALG00000017006 | SETDB2
Description
SET domain, bifurcated 2 [Source:HGNC Symbol;Acc:HGNC:20263]
Coordinates
chr1:168514804-168516424:+
Coord C1 exon
chr1:168514804-168515020
Coord A exon
chr1:168515021-168516339
Coord C2 exon
chr1:168516340-168516424
Length
1319 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
CCTTTGAACTCCCTATACAGAAT
3' ss Score
7.5
Exon sequences
Seq C1 exon
GCAGGTTAATGAGCAGAGCTGAAGTTCAAGAGCTGGGAGGTGCTGATCAAGACTTGAAGGAGGAGAGTGCTGTGAATGACAGAGGGCAAAGCTTCTTCTCCAAAAAAAGAAAACTCGACTCCAGCTGTTCAGACTCTGAGATTGAACTCGTGCTGACTGGCAAAGATGACATTCTTGAGCATCAGCAGTCTGCTGTTAATGAAAATGACTCAACTCC
Seq A exon
GTAAGTTTACCAAATGTAAAACGTAATATTCTGATATTCTAGAGTGTCCCCTATAGAACATACAGTAGAATTGAATGTTGTTTGCTGAGAGGTGTTTCTTTTACTTTTTCAACTCCTGGTTATTAGTTCTAGTGGGATAGAGTGATTCCTACATACTAATTTTCCTCACAACGTGCATCACTTGGCATTTGCTAGAAATCCCATTTCTCTCCTGAGTGTCTTCACCTCTTCAGGGCATGAATCATTATGCTAGCTTGAAAAGAGAGAAACAATTAAAAACATACTTGATGACACTAAAGGATTTGATAATAAATTAGCCACTAAGCGTACTATTCTTTGCTTCCATCTCTAAACCTTTTCTTCTTTGTCCCTTGACCCACTCTGCTAGGACTTCTAACCTTGCCAGTTAGGAGTCTGACAGTGCCTTGCTTTTGCAGGTGTTGTTGCAATACACAGAAATTGTAATCTTGTTTACACCTCATGGTCTCATAGCCTATCAGGATTCCTGAAATAAAACCACTGCAAGGTAATGCATGTGGCCTCAGCAGTAGCATACTGTAGTCTTTTTCAGAAGGACACGAGGAGCTTGTTTCCCTCAACTTTCTGCCTTGCTTTGCTTACACTTTCTTTGTAATACCTGTAAGTAATTGCAAATACTCGTTCTGTGAGGAAAGGCTGTTGTAGATCTTTGAGAAGCACAGTAACATCACAAACAGAAGCTTTAAAAAAAAAATACCTGCCAGTATATTCTCATGTTTTTGTATCTTGGGAAGCTAGCAAATTAATAATGCTGTAAATTACTTAATTAGCAGCTGTTCACTGGATGTTATTTCTAATAGGTCTTCTGCTATAAATTGTAGGGAAGAATAACATAAATGTGACTTCTGATGTTGTAGGGATATATACCAAATACTGCTTCCCATCCTTCACGCTTTCACATCAGGTGAAGGTTGAGATTCTTCTGTGGGAGAGCGTTTTGTATATCTGCTGTATATTGACTGTCTCACCCTGTATTCTTTCTCCCCTGACGTTTGTTTTGCTTTCCTGTTTTAACACTATAGTATAGCTTCAAACTATTGAAAGTAATAGCAGGAGAAAGGCAGAACACTGTAGGTGCTCTATGTTGAGGTGAATCGAACAACAGAGAATTTGTTTCTCTGGAGCAGTGAACCTTCCATTCTTAAAGGCAGTTTGAGGTGAAAGTAGAACTACAGGCTATGATCTGTTCTTCACGAGCTAGAGACTGTTAAAGAAACATATGTTGTGAGAGTTATTTATGTGTCTGTCTTTTGCAATTTCCCTTTGAACTCCCTATACAG
Seq C2 exon
AATTCATCCAAGGAATTTGAATACTGCAGCCACGAGAAGGCTTGGAACTAGAATAGCTGTTGTGGATAATCACCAGCTGAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000027470:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.349 A=NA C2=0.552
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(33.0=100)
A:
NA
C2:
PF0085623=SET=FE(12.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGTTAATGAGCAGAGCTGA
R:
CATTTTCAGCTGGTGATTATCCACA
Band lengths:
302-1621
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]