HsaINT0148703 @ hg38
Intron Retention
Gene
ENSG00000156304 | SCAF4
Description
SR-related CTD associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr21:31691817-31692449:-
Coord C1 exon
chr21:31692349-31692449
Coord A exon
chr21:31691931-31692348
Coord C2 exon
chr21:31691817-31691930
Length
418 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
ATTAAAATGTTTTGGAGCAGATG
3' ss Score
3.24
Exon sequences
Seq C1 exon
TTTGCAGTACTACCCTCTGGGTGGGGCAGCTGGACAAAAGAACTACTCAGCAGGATGTTGCCAGTCTCTTGGAAGAGTTTGGTCCAATTGAATCAATTAAT
Seq A exon
GTGAGTGTTTATTCAGTTTTTTAAGTACGATGGACAGGTGTGATTAATGTCATTTTATGAAATGGAGGACCTGAGACCAAAGTTACAATTTGCCCAGGTTTATAGATGTGACTAGAATTTAGGTGTTCAGAGTCCACGTTTAGAATTATCTGTATTTAACATTTCTTAGAATTCTTTGTATTTAACATTTCTTGGATAACCAAGTTTAATTTCAAACATTTCTAGGTAAGTCTTTATATAACAAAGCTTGGAGGACTCAGTTGAGACCAAACTTGAATTGCCAACTTAGAAATGAATTTAACCTTACATTATATAGCATGGGGTGAGGGATGGGATTGTTGGAACTGCTTACTTGGTGTTGTATCTTGTTGCTTTTCAATTTTGTTATCTTTTATAATATTAAAATGTTTTGGAGCAG
Seq C2 exon
ATGATTCCTCCCAGGGGTTGTGCCTATATTGTTATGGTTCATAGGCAAGATGCCTATCGTGCCCTGCAGAAACTGAGCCGAGGAAACTATAAAGTGAACCAGAAATCCATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000156304:ENST00000286835:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(41.8=82.4)
A:
NA
C2:
PF0007617=RRM_1=FE(55.2=100)
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:
CTCTGGGTGGGGCAGCTG
R:
TCTGGTTCACTTTATAGTTTCCTCGG
Band lengths:
190-608
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