HsaINT0146172 @ hg38
Intron Retention
Gene
ENSG00000159307 | SCUBE1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr22:43222638-43223216:-
Coord C1 exon
chr22:43223097-43223216
Coord A exon
chr22:43222743-43223096
Coord C2 exon
chr22:43222638-43222742
Length
354 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
ACCCACCGGCTTCTCTGCAGACT
3' ss Score
7.81
Exon sequences
Seq C1 exon
AGACAGGCAAGTGTCTTTCTCGCGCCAAGACCTCCCCCCGGGCCCAGCTGTCCTGCAGCAAGGCAGGCGGTGTGGAGAGCTGCTTCCTTTCCTGCCCGGCTCACACACTCTTCGTGCCAG
Seq A exon
GTAACCCGGGCCGTCCCTGAGATGGGATGCTGTGGCAGGGGGGTCTTCCTCCCTGGGGTCCCACCATTGCTCCCAGCTGTCCTCCAGGAAAGAGTCTGACCTAGGAATGAGGGTCTCTGATAACTGAGTGACCCTAAGGCAGCTGTCTGGTTTTCTGTGGGCCTCGCTGTCCTTCTCAGTAAACCCAGTGGGCTCCTTCCTCCTGGCCACTTCCCTGTGGTTGTGTAGCAGAAACTGGCAGAAGAATCTGTCCTGATCTTCGTCTCACTCCACAATCCCTCTGAGGCCCCAAGAATCTGAGGGCCGTGGGAGGGAGGAGCACCAGGCCCACCTCACCCACCGGCTTCTCTGCAG
Seq C2 exon
ACTCGGAAAATAGCTACGTCCTGAGCTGCGGAGTTCCAGGGCCGCAGGGCAAGGCGCTGCAGAAACGCAACGGCACCAGCTCTGGCCTCGGGCCCAGCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159307:ENST00000360835:11
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=0.444
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:
ACAGGCAAGTGTCTTTCTCGC
R:
CCAGAGCTGGTGCCGTTG
Band lengths:
203-557
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development