HsaINT0148714 @ hg38
Intron Retention
Gene
ENSG00000156304 | SCAF4
Description
SR-related CTD associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr21:31696113-31696750:-
Coord C1 exon
chr21:31696569-31696750
Coord A exon
chr21:31696222-31696568
Coord C2 exon
chr21:31696113-31696221
Length
347 bp
Sequences
Splice sites
5' ss Seq
ATTGTTAGT
5' ss Score
-3.4
3' ss Seq
GATTATCCACCTTTTTTTAGTGG
3' ss Score
6.58
Exon sequences
Seq C1 exon
AAGTTGCTTGATAGATTTGACTATGATGATGAGCCAGAAGCTGTGGAAGAATCAAAGAAAGAGGATACCACTGCCGTCACCACGACAGCACCTGCTGCCGCAGTACCCCCTGCACCCACCGCCACCGTGCCTGCTGCTGCTGCACCCGCTGCTGCCTCTCCTCCTCCTCCACAGGCACCATT
Seq A exon
GTTAGTTTTTTTTTTTATTCCTCAGCAGATAGAAAATTGGTAATAGTTGTAAGGCATAACCTAAGTAACATTTAGCAATGACAACAATGTTCTATGAAGTTGTTTTGTAAAATTTGTGGTATTAGTTTTCTCTTGAATGAGGAAGGGATCCTCTTAAGATTTAAAACCAAAAAATGGCTTTTATGTTGGGAATAATACTGAGTTTATAAATTAAATTTAATATATAGGTAAATATATGGTTCAGTAAAATGTTAATGACTCATGAACAACACTCTGTTTCTGTAATTTAAGTGTGGCTGAGAAGCTTGTGCTTTTGAATGGGTAAAAGATTATCCACCTTTTTTTAG
Seq C2 exon
TGGCTTTCCTGGAGATGGCATGCAGCAGCCAGCATACACACAGCATCAAAATATGGATCAGTTTCAGCCACGAATGATGGGAATACAACAGGATCCAATGCACCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000156304:ENST00000286835:8
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=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGATTTGACTATGATGATGAGCCAGA
R:
TGATGGTGCATTGGATCCTGT
Band lengths:
278-625
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains