HsaINT0145304 @ hg38
Intron Retention
Gene
ENSG00000173611 | SCAI
Description
suppressor of cancer cell invasion [Source:HGNC Symbol;Acc:HGNC:26709]
Coordinates
chr9:124971370-124971844:-
Coord C1 exon
chr9:124971671-124971844
Coord A exon
chr9:124971471-124971670
Coord C2 exon
chr9:124971370-124971470
Length
200 bp
Sequences
Splice sites
5' ss Seq
TAGGTACCC
5' ss Score
5.35
3' ss Seq
CACTTTTCTCCTCTTTGCAGATC
3' ss Score
12.56
Exon sequences
Seq C1 exon
ATCAATCTCAGCGAGGTAGCCTCTTCACTCTCTTTTTGAACAATCCTCTAATGGCCTTCCTATTTGTCTCTGGATTGTCAAGCATGCGCAGAGGCCTATGGGAAAAGTGTCAAGAATATCTTCGAAAAATCAACCGTGATATTGCCCAGCTACTGACTCATTCACGTTCAATAG
Seq A exon
GTACCCTCCTAATCTAACTGCACGTTTAACAGAATGTACTATAATGGCTTAAAATGGTTACTTATTTTAAATTGTTTGAATTTTTAAAGGTATGTGTCCCAGGCAGGAAAGTTGAGAACGCTTTCCTGAAGTTTCCTTCCCCTTTGAAACATAATTTCCATTTAAGCATCTTTTTACTGTCACTTTTCTCCTCTTTGCAG
Seq C2 exon
ATCAGGCATTTCTCCAGTTTTTTGGAGATGAATTTCTTCGCTTGCTCCTCACAAGATTTATCTTTTGTTCAGCCACCATGAGGATGCACAAGATTTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173611:ENST00000336505:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120703=DUF3550=FE(11.7=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.7=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:
ATCAATCTCAGCGAGGTAGCCT
R:
ATCTTGTGCATCCTCATGGTGG
Band lengths:
268-468
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains