HsaINT0148371 @ hg19
Intron Retention
Gene
ENSG00000143379 | SETDB1
Description
SET domain, bifurcated 1 [Source:HGNC Symbol;Acc:10761]
Coordinates
chr1:150935450-150936217:+
Coord C1 exon
chr1:150935450-150935615
Coord A exon
chr1:150935616-150936005
Coord C2 exon
chr1:150936006-150936217
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-SETDB1:NM_001145415:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.310
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
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)