HsaINT0146218 @ hg38
Intron Retention
Gene
ENSG00000146197 | SCUBE3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr6:35241543-35241910:+
Coord C1 exon
chr6:35241543-35241659
Coord A exon
chr6:35241660-35241805
Coord C2 exon
chr6:35241806-35241910
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
TGACAGGCTCCTTTTCTCAGAGT
3' ss Score
5.84
Exon sequences
Seq C1 exon
AGCCACTGAAGTGTCAGGGCAGTCCTGGGGCCTCGAAAGCCATGCTCAGCTGCAACCGGTCTGGCAAGAAGGACACCTGTGCCCTGACCTGTCCCTCCAGGGCCCGATTTTTGCCAG
Seq A exon
GTACATGGGAGGAGGGTGCTGGAGAGCTTTGGAGGAGAAAAGAGGAAGGACTGGCCGTTCAGGCAGCTCCTTCATTCCCCCTGGATTCCTCCAGCCAGCGGGGGTTGGGAAGGCAGGTCAGAACTGTGACAGGCTCCTTTTCTCAG
Seq C2 exon
AGTCTGAGAATGGCTTCACGGTGAGCTGTGGGACCCCCAGCCCCAGGGCTGCTCCAGCCCGAGCTGGCCACAATGGGAACAGCACCAACTCCAACCACTGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146197:ENST00000274938:11
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=0.389
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGTGTCAGGGCAGTCC
R:
GTGGTTGGAGTTGGTGCTGTT
Band lengths:
210-356
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
- Pre-implantation embryo development