HsaINT0148712 @ hg38
Intron Retention
Gene
ENSG00000156304 | SCAF4
Description
SR-related CTD associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr21:31700995-31701918:-
Coord C1 exon
chr21:31701776-31701918
Coord A exon
chr21:31701172-31701775
Coord C2 exon
chr21:31700995-31701171
Length
604 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TGGTTTTCCCATTCTTTAAGCTT
3' ss Score
7.37
Exon sequences
Seq C1 exon
GCTCACCTCCACCTCCAGTAAAAGTTTCTTCTGAACCTCCCACACAAGCCACTCCAAACTCCGTCCCAGCTGTACCACAGTTGCCCAGCTCTGATGCTTTTGCTGCTGTGGCTCAGCTGTTTCAGACAACTCAAGGCCAACAG
Seq A exon
GTAAACTGTCTACTCAAAAGTGAAATTGTTTGCAGGACTAGGTACTGTTGTCACTTCTTGTTTTCTATTCTTCATTAATAAGCACATTGAAAGGAGAAAATACGTCTGCTTTTCAACTAGAAAAGCCTTCACAAGAGAAGTAATGTAGGAGGAACAGGGAAAATGTAGAAGTGATAAACAAGGGAACAACACACTTAGAAATGACAGTACCTCTTTGAAGAGGACTTTAGAACTACTAAGTGGCTCATGTTGCTCACAATTCTAGCATTTCTGATGGATTTCAAAATTATTTTTAACGGAGAGAATTTTTCCATTTTTCTAGAAAACTTATGCTTACTTTGTTCACAATTCAGTGTATTTTCTCTTTTTTTGACCATCATATCATTGACATTGTCAGCATACATTTTTAACCTTAAGAAATGCACATTATATCTCTGTATATTCATTCACAACAAATTTAACCATTCATAAAAGGATTTTTTCCCCAATTTGTTCTGTGCCTATGCTACTTTGAATCACCTTTAAGACATTTTTTTATTAAATTAACTTTTGATAGTATGATTATACTTTGTTCTGTGATTTATTGGTTTTCCCATTCTTTAAG
Seq C2 exon
CTTCAGCAGATCCTTCAGACTTTTCAACAGCCTCCAAAACCACAGTCTCCTGCCCTTGACAATGCTGTGATGGCTCAGGTTCAGGCTATCACAGCTCAGTTAAAGACAACTCCTACACAACCATCTGAACAAAAAGCTGCTTTCCCCCCACCTGAACAGAAAACTGCATTTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000156304:ENST00000286835:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.592 A=NA C2=0.980
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:
GCTCACCTCCACCTCCAGTAA
R:
AGTTTTCTGTTCAGGTGGGGG
Band lengths:
308-912
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains