GgaINT0112306 @ galGal4
Intron Retention
Gene
ENSGALG00000017006 | SETDB2
Description
SET domain, bifurcated 2 [Source:HGNC Symbol;Acc:HGNC:20263]
Coordinates
chr1:168513604-168515020:+
Coord C1 exon
chr1:168513604-168513773
Coord A exon
chr1:168513774-168514803
Coord C2 exon
chr1:168514804-168515020
Length
1030 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TTTTTTCATTTTTCTTCCAGGCA
3' ss Score
10.71
Exon sequences
Seq C1 exon
GATTTATGAGTGCAGCGTGTCATGCAGATGTGACAAGATGATGTGTCAGAACAGAGTTGTACAGCATGGCATTCAAGTTCGGTTGCAAGTGTTCAACACAGAGAAGAAGGGTTGGGGTGTCCGCTGCCTGGATGACATCGACAAGGGGACGTTTGTTTGTACTTACTCAG
Seq A exon
GTAACAGAACATGACCCATGGAAGACCCATAGCATAACTTCTACCTCCCCTGTGTCCTATGCCATGGAATTCCTTTGACAACCAAGCGGGGAAGCTTGAAGTTGGAAAAGAAGTGAGTCTGTATGACCTTAACTTGCAGATGATCGAACAGACGGAAAAACCTTGAGGGATTCTGCATTGTGATGGTGCTATCTGGAGTAAAGCCTGTCACACATACATTTTCCCTCACAAGTCTCTGCATCCTGTGCAAAGGGTACTTTTCCTTCAGTATAAGTGCATTCATCTATTGTTTTCCCAAATAATTCTCTTGCCTTGAATACAAGATTGCACCTTGAGTACTGTGTCCGCACCTTGAGTACTGTGTCCAGTTTTGGGCCCCTCACTGTAAGAAAGACATCAAGGCCCTGGAGCGTGTCCAGAGGAGGGCAACAAAGCTGGTGAGGGGTCTGGAGCACAGACCTTATGAAGAGCAGCTGAAGGAGCTGGGGTTGCTCAGTCTAGAGAAGAGGAGGCTCAGGGGAGACCTTATTGCTCTCTATAATTACCTGAAGGGAGGTTGTGGTGAGCTGGGAGTCAGCCTCTTCTCCCGGGTGACTAGTGATAGGATGGAGAGGGAATGGCTTCATGCTGCGCCAGGGAAGGTTCAGGCTGGACGTTAGGAAATACTACTTCTCTGAAAGGGTGGTCAGGCACTGGAATGGGCTGCCCAGAGAGGTGGTGGAGTCACCGAGCCTGGTGGTGTTTAAAGAGCGTTTGGATGTTGTGTTGAGGGACATGGTTTAGCGAGAATCATTGATGAAGGGTGGATGGTTGGACTGGGTGATCCTGTGGGTCTTTTCCAACCTTAGTGATTCTATGATTCTATGATTGAGCTGGGATAGTGTGTGTGACCCAACTTTTAAGTAACTATTATTTTTTAATAAGTTAAATTAAGTAACAATTAACTAAGTAACTATTAAGTAACTATTAAACTAATTAACTAATAACTTAAATTAAGTAACTATTAATTTTTTTTTCATTTTTCTTCCAG
Seq C2 exon
GCAGGTTAATGAGCAGAGCTGAAGTTCAAGAGCTGGGAGGTGCTGATCAAGACTTGAAGGAGGAGAGTGCTGTGAATGACAGAGGGCAAAGCTTCTTCTCCAAAAAAAGAAAACTCGACTCCAGCTGTTCAGACTCTGAGATTGAACTCGTGCTGACTGGCAAAGATGACATTCTTGAGCATCAGCAGTCTGCTGTTAATGAAAATGACTCAACTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000027470:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.349
Domain overlap (PFAM):
C1:
PF0503311=Pre-SET=PD(15.5=31.0),PF0085623=SET=PU(76.9=34.5)
A:
NA
C2:
PF0085623=SET=FE(33.0=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:
CAGCGTGTCATGCAGATGTGA
R:
GCAGACTGCTGATGCTCAAGA
Band lengths:
351-1381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]