HsaINT0146175 @ hg19
Intron Retention
Gene
ENSG00000159307 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:13441]
Coordinates
chr22:43614261-43616593:-
Coord C1 exon
chr22:43616456-43616593
Coord A exon
chr22:43614465-43616455
Coord C2 exon
chr22:43614261-43614464
Length
1991 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TGTCTCTCCTGCCCCTGCAGACA
3' ss Score
11.28
Exon sequences
Seq C1 exon
ACCACTGCCATGTGACTTTCGTGACCCTCAAGTGTGACTCCTCCAAGAAGAGGCGCCGTGGCCGCAAGTCCCCATCCAAGGAGGTGTCCCACATCACAGCAGAGTTTGAGATCGAGACAAAGATGGAAGAGGCCTCAG
Seq A exon
GTAGGTGAGGGGTTCTCCTGGGGGCTTCTGCAGGCCTGAAGGAGGACGACAGGCTGGTGGCGCTGCCGGGGGCCTGCCAGGCATGAAGCTAGGCTCCCACCAGAGCACAGCTGTGGCTGGGATGGGAGCCCAGCTTCTGGAGACAGAGGCAGGCCCACAAGCAAAGGGAGCTGGCAGGGGTCAACGCTTGCAGCCCAGGATAGAAGAGGCAGCCCAGGGCAATGAGACAGAAGAGCCGAGGTGACCTCAAAAGTCACATGACCCTTATCTGCCCCTCCACACTCCTGCTGGGACCCGGGAGGACAAATAGGTGCAGCCCCCCTAGAATGGTTGAGCCAAGGATTGTCTTTCCTGGTTCCTGAAGGAGGTTCTAATGCTGGCTCGGGTGTCACAGCAGCACTTTGCTCTTGGCTATATGTGAGTGTCAACCTGTGAGTCGTTGATGTTGAAGAGATGGGATCTGTCAGCAGATAAGTGTGGTATGGGCCTGGCTGTGGGCTTGGGCGCTGTGGAAAGAAAAGTCCCCACCCAGGTAACACTCTCAGCCAGAGAGGCAGACGCACGTGCAAACCACCCATTGCCAGGTGGGACTCTCGGTGGTGGGGGCACAAGAACAAACAATGCATAGAACTGAGGTCTGCCCCCCACGGGAGGGCTTAGGAAATGTCTTAGTCTGGCTGGGCACACTGGCTCACGCCTGTAATCCCAGCAGTCTGGGAGGGCCAAAGTGGGTGGATCACTTGAGTTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGTGTGGTGGCAGGCACCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGCAGAGATTGCAGTGAGCTGAGATCGCGCCACTGTGCTCCAGCCTGGCGACGAGTGAGACTCTATCTCAAAAAAAAAAAAAGGAAATGTTTTAGTCTATTTGCGTTGCTAAAAGGAACACCTGAGGCTGCATAATTTATCAGGAAAAGAGCTTATTGGCTCTCGGCTCTGCAGGCTGTCCGAGAACACGGCAGCAGCATCTGCCTGGCGAGGCCTTAGGCTGCTTCTGCTCACGGAGGAAGGTGAAGAGCAGCTGGCATCACATAGCAAGAGTAAGGGAGCAAGAGAGAGGGGAGGGGGTGCCTATGTCTTCACCAGTCACATCTCGTGGCGACTAGTAGAGCCAGCAAGAACTGACTACCACACCAGGCCATTCATGAGGGACCTACCCCATGACCCAGACACCTCCCACCAGGCCCCACCCCCAGCATTAGGGATCAGATTTCAACATGAGGTTTGGAAGAGACAAATATTGAAACCATATCAGGAAGCTTTCCCAGAAGAGGTGCCATTTGAATGAGAGCTTAGAATCAAAGCTCACTGGGTGGAAAAGGTGGCAAGGAATGGCATTCAGGCAGAGGGAATAGAATAGGCAAAGGCACAGAGGTCAGAGAGAGGAGGAGGTGTCCAGGAAGCAGTAAGTAGGGCCAGGTGGCTAGACATTGGAATCCACAGGGAGTGTCAGAGTGGAGGGGATGAGGCTGGCAAGGCCATACGGGGCTGGACCTTGAAGGGCCTTGGATTCAAGGCCAGAGAGCTGGACACTATCCTGGGGACAGTGGCAGTCCCCAAGAGTCTTTGAGTGACAGAAAGGCGTTCTTGCCCCGTGAGTCGTACCCTGGGGGGTGATGTGGTGCAGTGGCAGCTGCCTGGATTGCACTCAGATCTGCTGCGTGGCCGTGGGCAGGCCCTGCCTCCCAGGTCCGCAGCCTCCTCATCTGTCAGATGGGCATGACAGTGGCCCCTTGCCCCAGGACTGTTGTGAGAATGTGCTGAGGAGGTCCGAGCCCAGTGCAGGGCCTGGCACGGGGGAGCCCTCAGCTAAGAAGGCAGCGGCTAGCAAGGTTGCCAGCGATTCATGTTCTGTCTCTCCTGCCCCTGCAG
Seq C2 exon
ACACATGCGAAGCGGACTGCTTGCGGAAGCGAGCAGAACAGAGCCTGCAGGCCGCCATCAAGACCCTGCGCAAGTCCATCGGCCGGCAGCAGTTCTATGTCCAGGTCTCAGGCACTGAGTACGAGGTAGCCCAGAGGCCAGCCAAGGCGCTGGAGGGGCAGGGGGCATGTGGCGCAGGCCAGGTGCTACAGGACAGCAAATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159307-SCUBE1:NM_173050:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.415 A=NA C2=0.043
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:
ACCACTGCCATGTGACTTTCG
R:
CGCATTTGCTGTCCTGTAGC
Band lengths:
342-2333
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)