HsaINT0148371 @ hg38
Intron Retention
Gene
ENSG00000143379 | SETDB1
Description
SET domain bifurcated 1 [Source:HGNC Symbol;Acc:HGNC:10761]
Coordinates
chr1:150962974-150963741:+
Coord C1 exon
chr1:150962974-150963139
Coord A exon
chr1:150963140-150963529
Coord C2 exon
chr1:150963530-150963741
Length
390 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGCC
5' ss Score
1.28
3' ss Seq
CCATTCTCCCTCCTGTCCAGGTC
3' ss Score
10.07
Exon sequences
Seq C1 exon
GATGTCCTGACACTGTCCAGCAGCACAGAAAGTGAGGGGGAAAGTGGGACCAGCCGAAAGCCCACTGCTGGTCAGACTTCGGCTACAGCGGTTGACAGTGATGATATCCAGACCATATCCTCTGGCTCTGAAGGGGATGACTTTGAGGACAAGAAGAACATGACTG
Seq A exon
GTAGCCTGGAAAAATTTTGGGAATGGTGGGAAGAAATAGTAAGAAACTTGGGATAGAGCATTTTTTAAGGAAGCTAAAGAAGTAGTGGGTAAAAATTCAGATCCTAAGAATTGGAGCATCTCTGGGAGGGCTTTCTGACTCCAAGCTAAACTATTGTTTGACACATCCTCTCTCATTTCCATTTTTTTACTCTTTCCCCTCAGCTCCTTTGTCTAGCAGATCTAATTATGCTTGAAAAAAAAACCTGCTACTTAGGATCTTTGAGTTCCAGCTTATTGGTGTTTCTCAGCTGCAATGTTGGGAGAGAAATAGGGGTAGAATGTCCATTCATGATAGAATGTCTGTTCATGAGTTGGGATGGGTCCTGACCCCATTCTCCCTCCTGTCCAG
Seq C2 exon
GTCCAATGAAGCGTCAAGTGGCAGTAAAATCAACCCGAGGCTTTGCTCTTAAATCAACCCATGGGATTGCAATTAAATCAACCAACATGGCCTCTGTGGACAAGGGGGAGAGCGCACCTGTTCGTAAGAACACACGCCAATTCTATGATGGCGAGGAGTCTTGCTACATCATTGATGCCAAGCTTGAAGGCAACCTGGGCCGCTACCTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143379:ENST00000271640:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(12.1=100)
A:
NA
C2:
PF0085623=SET=PD(19.2=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCCAGCAGCACAGAAAGT
R:
GCCTTCAAGCTTGGCATCAATG
Band lengths:
345-735
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains