HsaINT0146182 @ hg38
Intron Retention
Gene
ENSG00000159307 | SCUBE1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr22:43207534-43208224:-
Coord C1 exon
chr22:43208072-43208224
Coord A exon
chr22:43207614-43208071
Coord C2 exon
chr22:43207534-43207613
Length
458 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CCTGCTGACCCGCTGCCCAGAGG
3' ss Score
4.21
Exon sequences
Seq C1 exon
CCTCTCCCACGTCCATCACCACCTATGAGACCTGCCAGACCTACGAGAGGCCCATCGCCTTCACCTCCCGCTCCCGCAAGCTCTGGATCCAGTTCAAATCCAATGAAGGCAACAGCGGCAAAGGCTTCCAAGTGCCCTATGTCACCTACGATG
Seq A exon
GTAAGATCCACTGTCTTCACGGCCCACTGTGCACGGCTCAGGCGGGGCCCTGGAGACACAGAGATGAGTCGCACGTCCCCGCCCTCAGGGAGCTGCGACCTGGCAGGTACAGACCTGGAAGCAGAACGAACACTGTCAGGGGCCAGAGCCAGACAGGCTGAGGGTGGTACCGGGTGGTACAGGCAAGACAGCGGTTAGTGGCCTCTGCAGGCTTCAGCTGAGGTGCTGCCCAAGCAGGGTTTTGAGGGCTAAATAGGGGGTTCTTAGTGAAACCCCGAGGAGGACAATACAGGTGCAGGGAGCCCCAGGTTCAAAGGCACAGAGGCAGAGCTGCGGCCAGCCATAGCCCAGAGCCCGTGGCTGGAGCACAGGAGGGAGGGCAGAGGCTGGAGGTGAAAGGGGAGCACGTGGGCCTCAAGCCCCTCGCCTTCCTCTCCCCCTGCTGACCCGCTGCCCAG
Seq C2 exon
AGGACTACCAGCAACTCATAGAGGACATCGTGCGCGATGGGCGCCTGTACGCCTCGGAGAACCACCAGGAAATTTTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159307:ENST00000360835:20
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:
PF0043115=CUB=PD(41.8=88.5)
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:
CCTCTCCCACGTCCATCACC
R:
CAAAATTTCCTGGTGGTTCTCCG
Band lengths:
230-688
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