HsaINT0148367 @ hg19
Intron Retention
Gene
ENSG00000143379 | SETDB1
Description
SET domain, bifurcated 1 [Source:HGNC Symbol;Acc:10761]
Coordinates
chr1:150931654-150933667:+
Coord C1 exon
chr1:150931654-150931823
Coord A exon
chr1:150931824-150933038
Coord C2 exon
chr1:150933039-150933667
Length
1215 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TTAATTCTCTTCATTCTCAGGCA
3' ss Score
8.72
Exon sequences
Seq C1 exon
GGTATATGAGTGTAACAAACGCTGCAAATGTGACCCAAACATGTGCACAAACCGGTTGGTGCAACATGGACTACAAGTTCGGCTACAGCTATTCAAGACACAGAACAAGGGCTGGGGTATCCGCTGCTTGGATGACATTGCCAAAGGCTCTTTTGTTTGTATTTATGCAG
Seq A exon
GTTGGTGATAAAATATAAGGGTTGTTTCCTGAGACTGGGACATGGTAGGGAATTGAACCAGAGACAAATTGAACATAAGAAGAAAGTGCTTGACATGTGAACTGGAGTAAGAGGAGGCCAGGGACTTCTACAAAGAACGTGATGAGTGATGTACCTGTCTAGCTAGACCAGAGAGGGACACAAGTGTTTCACAAATAAGAGAATGAAAAGGGATGAAATTTTGGACATGGTGATATTTCAGAGAACAGACATGATTATAGAGTCCAGTGTATCATTTTCTCCCATGTCACTCCACTCAGAGATCTTTTAGCATAGCCCAGTACTCTGTTTCAATAAAGTAGAAGAAATGGAAAGACAGAAAGGGCAAGATTTAAAATGACAGTAAGTTCTCCATACTTTCATAGTTAAGATACAAAGGGAGGTATTATCAAAGAGAAACACTGGGCCGGCGTGGTGGCTCATGCCTGTAATCCCAAAACTTTGGGAGGCCGAAGTGGGTGGATCACCTGAGGTCAGGAGTTGGAGACCAGCCTGGCCAACATAGTTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGGTGTGGTGGTGGATGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCCTTGAGGCAGAGATTGCAGTGAGCCGAGATCATGCCACTGCACTCCAGCCTGGGTGACAAAAGCGAAACTCTGTCTCAAAAACAAAACAAAAAAAAAAACAGAAATGAGAGACCAGAATGGAGGCTTTTTGACTCTATATGCTGGTAGAGCGGGTATTGATGGAATAATCCTTATTCTTTCTAATAGGTCCCCGTGGCCGGGTGCGGTGGCTAACACCTGTAATCCCAACACTGTGGGAGGCTGAGGCGGGCAGATCACCTGAGGTCAGGAGTTCGAGACCAACCTGGCCAACATGGTGAAACGCCATCTCTACCAAAAATACAAAAAAAATTAGCCAGGCATGGTGGCGTGCACCTGTAGTCCTATCTACTCAGGAGGCTAAGGCAGGAGAATCACTTGAACCTGGGAGGCAGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCCATCTGGAAAAAAAAAAAAAAAAAAGCAAACAAAAAAAAAAACTAATAGGTCCCCATAACCCTAGAAGGCCTTTAATTCTCTTCATTCTCAG
Seq C2 exon
GCAAAATCCTGACAGATGACTTTGCAGACAAGGAGGGTCTGGAAATGGGTGATGAGTACTTTGCAAATCTGGACCATATCGAGAGCGTGGAGAACTTCAAAGAAGGATATGAGAGTGATGCCCCCTGTTCCTCTGACAGCAGTGGTGTAGACTTGAAGGACCAGGAAGATGGCAACAGCGGTACAGAGGACCCTGAAGAGTCCAATGATGATAGCTCAGATGATAACTTCTGTAAGGATGAGGACTTCAGCACCAGTTCAGTGTGGCGGAGCTATGCTACCCGGAGGCAGACCCGGGGCCAGAAAGAGAACGGACTCTCTGAGACAACTTCCAAGGACTCCCACCCCCCAGATCTTGGACCCCCACATATTCCTGTTCCTCCCTCAATCCCTGTAGGTGGCTGCAATCCACCTTCCTCCGAAGAGACACCCAAGAACAAGGTGGCCTCATGGTTGAGCTGCAATAGTGTCAGTGAAGGTGGTTTTGCTGACTCTGATAGCCATTCATCCTTCAAGACTAATGAAGGTGGGGAGGGCCGGGCTGGGGGAAGCCGAATGGAGGCTGAGAAGGCCTCCACCTCAGGACTAGGCATCAAGGATGAGGGAGACATCAAACAGGCCAAGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143379-SETDB1:NM_001145415:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.767
Domain overlap (PFAM):
C1:
PF0503311=Pre-SET=PD(15.7=31.0),PF0085623=SET=PU(4.4=34.5)
A:
NA
C2:
PF0085623=SET=FE(46.1=100)
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:
ACAGAACAAGGGCTGGGGTAT
R:
CATAGCTCCGCCACACTGAAC
Band lengths:
347-1562
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)