HsaINT0146221 @ hg38
Intron Retention
Gene
ENSG00000146197 | SCUBE3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr6:35242622-35243236:+
Coord C1 exon
chr6:35242622-35242780
Coord A exon
chr6:35242781-35243020
Coord C2 exon
chr6:35243021-35243236
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
ACACGGCCATCCACCACCAGCCA
3' ss Score
3.7
Exon sequences
Seq C1 exon
GTGGTGCCCCCTGCTCTGAATGCCAGGTCACCTTCATCCACCTTAAGTGTGACTCCTCTCGGAAGGGCAAGGGCCGACGGGCCCGGACCCCTCCAGGCAAAGAGGTCACAAGGCTCACCCTGGAACTGGAGGCAGAGGTCAGAGCCGAAGAAACCACAG
Seq A exon
GTGGGACTGGGGGCACTGTTGGGAAGAGGACTGGAAGGGGAGGGCAGAGGTGGGGAAACCACAGGTCTCAGCAGCAAAAGGAAGGGATGGAGCCTGTACTAGGGGCAGACCCTGCCTGGTGCCAAGCCTAAAAGCTAGTCCCTCTTACCATGCCCCTCCTAGCTCCCAGCTTTGCTCCCCTGCCCTCCTGCTCACAGCAACTCTTTCTCCTCCCTGATACACACGGCCATCCACCACCAG
Seq C2 exon
CCAGCTGTGGGCTGCCCTGCCTCCGACAGCGAATGGAACGGCGGCTGAAAGGATCCCTGAAGATGCTCAGAAAGTCCATCAACCAGGACCGCTTCCTGCTGCGCCTGGCAGGCCTTGATTATGAGCTGGCCCACAAGCCGGGCCTGGTAGCCGGGGAGCGAGCAGAGCCGATGGAGTCCTGTAGGCCCGGGCAGCACCGTGCTGGGACCAAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146197:ENST00000274938:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.219
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:
AGTGTGACTCCTCTCGGAAGG
R:
TACAGGACTCCATCGGCTCTG
Band lengths:
297-537
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