GgaINT0112312 @ galGal4
Intron Retention
Gene
ENSGALG00000017006 | SETDB2
Description
SET domain, bifurcated 2 [Source:HGNC Symbol;Acc:HGNC:20263]
Coordinates
chr1:168519932-168521971:+
Coord C1 exon
chr1:168519932-168520020
Coord A exon
chr1:168520021-168521803
Coord C2 exon
chr1:168521804-168521971
Length
1783 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAT
5' ss Score
6.6
3' ss Seq
CAAGATGTCTTATTTCTTAGGCA
3' ss Score
6.51
Exon sequences
Seq C1 exon
CACAGCTGCTGCCCCAATCTCTTTGCACAGAGTGTGTTTGTAGAGACGCACAACAGAAGTTTCCCATGGGTTGCATTCTTCACAAACAG
Seq A exon
GTGAATTTTTTTGGAAGTCCAATGTTTGTTCAAAGCACAAGGAAAGAAAATAGTGCTTAATTATTAAGAAAAAGTTATGCTAAGGGTGCAGCTGTTTACCTCATGAAACCATGGGGTAGCTTGGTTTGGATGCATCCATTTTGGTTATCATTCTTTCCACTGAAAAGTAGGTTTAACTCCGTGTGGTCATCTTAAAAGCAATGGTTTGTTGGTCTTAGTGTTGTGTTTCAAAGAGTGGCCAGCAGAGCTGTGTCCTTTAGGGCAGAGTTGGAGCCTACAGGATCTTAAAGTTGATACATTTTCTCTGTGGGCACAGCAAGCTGACTCCAAACCTTCTCTTCGCAGCTTCCAAGAGTAGCAGGGTTCTGTGTAGTCAGACTTGTCTTGGGAATGTGGCAATAGGGTTCTCAGAAGGGGAAACTTCCTCTGAAAGCAGAAGATGTGGTTATCTCCTACCAGATGTCAAGAAGGGGAGATGCAGATTGCAGGTGCAACAATGGGAGTGCTGGGAGAGAATTTACAATGCAGAAGAAAGGATTTATTTTAGACAAACCCTCTGCCTGAGGTACACAGATACTCTGTGGAGCCTTGCAACCGTAGGCCCAACCCCTTGGTCCTGTGCTGACACGTGCTGTGGATTGCTTTGTGGGGGTTTATGAGAACTCTGAAGACAATGGTTTGAAACAAGATTTTATTTTAGCTAGAATCTTTCTTGCTCAGGTAGTCAATAAATAACTCTGTAATGGGGATTGAGGCCAATGAACAGAGGCAGTAGTGGTCAGCAGAAGGCAGTTAAGGGGGACTGTTGAAGAAACGTTCTCCTGGCTTGTCCTGTTGCTTTGTCAGCCACCCCTTTGCAACTTATCTACATTAAGGACTGCATTTGAATCATTGAACTTAATTATATATATTCTGTAAACTTACCCAGCCATGTTTTAAATTATTTCATATTTCTGACTCCCAGAACATCCTAAGGCAAAAAGTCTCATATTACAATTATGCTCTGCTTGAAAAGTTCTCATTTGCTTTATTTTCAGCCTGCTGCCTTGGTAATTCACTGGGTATCCCTTATCTTACCCTGTGAGAAATATCACAGAATTACTCTTCTTCTTAATACAAGTATTTTATTGCATTTTCCCTTGGTTGTACCTCAGCATCTTAGTCTCTATTTAATTTGGCATTCATTTTGAACAGTCAATTTCCTGCATAAGAAATTACTTCTCTTTCCTATACTTGTCATAGTGGCTACTTCTTGAGGACCATCCGTTTAACTTTGAGTCCTGGGCTTTGTGCACATGTGCAGTGCAGTTGCACTAAAAGGTTGCTTGTTAGACCAAAGATGGTTACCTTCATCACCACTGCACCCAGAGATCTGTTTGAACCCCAATGATGTGCTGTACATATTAAAAAGAACAAAACTGCCTGTGCTGTCATTTAGATGTATTCATGTATGTTTGGTTTTTTTTTCTTGTTTATTTTTTTGTTCCCAAAAATTTGCCTGGAAGTTAGAATGGGTTGTTTAGACCCCAACTCTACCACACTGCTTGACACAATCTTTATTGCTAGGTACAGGTATTTGCACCCTTCATAGCAGGAAGTATGGAATTCCTAGTAGGAAATCAGCACTCCTTATATCTCTTGGTTCAGTCTGAGCATGCTGCCTGTGCAATGCTTTTGTCCCCATACACATTTGGATTTTGCTTGTGAGTTGCTGGTGACAAATGGTAAGTACATTACTGTTTCATTTAATTCCAGTAAATTGACAAGATGTCTTATTTCTTAG
Seq C2 exon
GCATGTGAGAGCTGGAACTGAACTCACGTGGGATTATGGCTATGAAGCTGGAAGTATGCCAGAGACAGAGATTTCCTGTTGGTGTGGAGTTCAGAAATGCAGGAAGAAAACCTTATAGAGCAAGCTTTTCTACTGTCAGCACCTCATGTACATAGAGATTTATATGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000027470:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(39.7=100)
A:
NA
C2:
PF0085623=SET=PD(17.8=32.5)
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:
CACAGCTGCTGCCCCAATC
R:
CTCTATGTACATGAGGTGCTGACA
Band lengths:
246-2029
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]