HsaINT0148390 @ hg19
Intron Retention
Gene
ENSG00000136169 | SETDB2
Description
SET domain, bifurcated 2 [Source:HGNC Symbol;Acc:20263]
Coordinates
chr13:50056873-50057699:+
Coord C1 exon
chr13:50056873-50057098
Coord A exon
chr13:50057099-50057599
Coord C2 exon
chr13:50057600-50057699
Length
501 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
AACTTTTTTTTCCTTTTTAGGGA
3' ss Score
12.13
Exon sequences
Seq C1 exon
GAAGATTACTAAGCAGAGCTAACACTGAAAAATCTTATGGTATTGATGAAAACGGGAGAGATGAGAATACTATGAAAAATATATTTTCAAAAAAGAGGAAATTAGAAGTTGCATGTTCAGATTGTGAAGTTGAAGTTCTCCCATTAGGATTGGAAACACATCCTAGAACTGCTAAAACTGAGAAATGTCCACCAAAGTTCAGTAATAATCCCAAGGAGCTTACTGT
Seq A exon
GTAAGTAACAGCTGAGGAACCCAGAGTAAATCTAAATTATTATCAATCAATTGGTTCTTTTTCATTCCTTCCCCTCTTTCTTTTCTCCTCATTTGTATTTATCATTTTGCTTCAAAGTTGTTAAGTCTAACACTTTGAGAAATCCAGGACATGTAAAAATCTAGCCAATATACCATCCTCAGTGTTCCAGTTTTGGAATTTTACCTTATATGACTTTAGTCAGGTTTTTTATGGATGTCATAAGTTTTGCTGTTTTTTAAAATTTTCTATCATTTTATCTGCAAAGTTTTCATAGGTTCTCTTCCTTTTCCAAATGTACTTCAAAAATTATTTATGATTATATTTCCTTTCTCTAGGGAAAGGAATAAACATAGATGTTCTTACTTAGGTTAATTTATAATAATTAAGGATATTTATGTAATAATGGATATTATCTGTACTTGAGTAAAGAGAATGAAGAGAATTTTTAGTGATACAGAATAACTTTTTTTTCCTTTTTAG
Seq C2 exon
GGAAACGAAATATGATAATATTTCAAGAATTCAATATCATTCAGTTATTAGAGATCCTGAATCCAAGACAGCCATTTTTCAACACAATGGGAAAAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136169-SETDB2:NM_001160308:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=NA C2=0.353
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(45.7=100)
A:
NA
C2:
PF0085623=SET=FE(20.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGATTACTAAGCAGAGCTAACACT
R:
TCCCATTGTGTTGAAAAATGGCTG
Band lengths:
318-819
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)