GgaINT1024890 @ galGal4
Intron Retention
Gene
ENSGALG00000017006 | SETDB2
Description
SET domain, bifurcated 2 [Source:HGNC Symbol;Acc:HGNC:20263]
Coordinates
chr1:168516340-168517699:+
Coord C1 exon
chr1:168516340-168516424
Coord A exon
chr1:168516425-168517596
Coord C2 exon
chr1:168517597-168517699
Length
1172 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
TATTTTTGTTCTGTTTCAAGGAA
3' ss Score
8.3
Exon sequences
Seq C1 exon
AATTCATCCAAGGAATTTGAATACTGCAGCCACGAGAAGGCTTGGAACTAGAATAGCTGTTGTGGATAATCACCAGCTGAAAATG
Seq A exon
GTAATGTTAATAAGTGGCTTTAAAAGATTTATGTTCACTATGCTGAGTATATATGTTAATTTTGACCTTTTAATTTTAAACACATTTAAAAAAATCCTAACGGCCTTTCTTCATGAAATTATGTGGGGAGATGGCTTTAAACTGGAAGAGGGTAGATTTAGACTAGATATTAGGAAGAAATTCTTTACTGTGAGGGTAGTGAGACACTGGAACAGGTTGCCCAGTGAGGTTGTGGATGCCCCCTCCCTGGAAGCATTCAAGGCCAGGCTGGATGGGGCTTTGAGCAACCTGGTCTAGAGGGAGGTATCCCTGCCTGTAGCAGGGGGTTGGAACTAGGTGATCTTAAAGGTCCCTTCCAACCCAAACCATTCTATGATTCTATGTCACACTGTGAGCTGAGCTGGAAGCTGTATCGTGTCCATTCTCCATTATCAGCTGTTCAACTTGTTGCTGAGAATGGCATTAGTTGCTCTCACAGCCTTCCTTTTTCCAAACTCACCCTTTGCATACACTCCAGTTATGAGTCTCAATAAAGGTTTCTTCCCCCTCCACCGCCTTTGTTAACTAATTGCAGCAATGAGGGAGTCAGAGTGATAATATTTTTGTGATGTCCCCCCAGAGAATGACACAGCAGGGAGAGAAGAAAATCTTGGGAGCAGTAACTGCATACAGTGGCACAGTGAAGAGAATCTTACCTGCCCCAGGTGCAAAACGTTACCTGTAAACATATGCAAAGGAAGGAGACTGGTGTGAACTTACTCTACAGATTCCATTGCACATTATATTTTCATGCTAAAATTTGGCAGTTTGATCTATTCCAGTGCTTCCATATCTGGTTTCTTTTCTGTTCGTTTTACTAAAACCTCATACAAAGCATATTTGGGCTTTGGTGCGACTTACACAAAAACATTTAGACTGTGAAATGTTTGGGTCTTAAGCACTTACATAAATATTACATTGAGTGGTGAGCTTCTTCCGGGTTGTTCCAAAGAATAATTTGAGTTTGAGGTATGCGTTGCAGTTAAATGTTTGGAGCTTTGGAACTCAGTGTCACGGTAGGTTTGAAACTTAAATCCTGGATTCCTAAAACCTATTTACTATCCTTTGTTGACCCAGTGTTTCATACAGCAAAATACATCACAGCCTTTTCACTATTTTTGTTCTGTTTCAAG
Seq C2 exon
GAAGTCGATACACTGGTGCACAGTGCTGGCTCAGATGAAGATAATAGTTCTCAGCCTCAGCAGTCAAGTGAAACAGAACTGACAAGTGGGACAAACAAAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000027470:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.552 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(12.8=100)
A:
NA
C2:
PF0085623=SET=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCCAAGGAATTTGAATACTGCAGC
R:
TCTTTGTTTGTCCCACTTGTCAGT
Band lengths:
182-1354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]