HsaINT0146197 @ hg19
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9074646-9075306:-
Coord C1 exon
chr11:9075184-9075306
Coord A exon
chr11:9074763-9075183
Coord C2 exon
chr11:9074646-9074762
Length
421 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
GTCTGTTTTGTCCTGTCTAGAAG
3' ss Score
8.38
Exon sequences
Seq C1 exon
ACACCAATGAGTGCAGCATCAACAACGGAGGCTGTCAGCAGGTCTGTGTGAACACAGTGGGCAGCTATGAATGCCAGTGCCACCCTGGGTACAAGCTCCACTGGAATAAAAAAGACTGTGTGG
Seq A exon
GTAAGGGGAACCGAGGCACAGACTCAGACAGCAGGCTGGCCACTGGCCCAGAGGCAGTGCAGCTCTGCGTGCTCCCACATCCCACCTGACCGTCCCTCCACTGACTTCCCCACCAGCTGCAGCAACTGTTCTTTAAATAGTTCAAAAACAGGAGATACTTTGCCGGATCTTTGGTGTTTCCTTCTGTGCTTCTGTGTAGGTTGGAACTCACTTCTGTTTTCCTGGTTGCTTTTCTGCATGAAGAAATGGCATATCAGGGGCTCCTTTCCCTTGGTGGGAATAAGGCCTAGCATCTATGTTCTGTGCTGGGCATGAGCTCTACCTTCTTTTCTTGGGGCCTTTGGTGCATGGGACTCAACCATCCTTGTCACACTTGGAAATGTCCTTCTCTTTCTGTAAGTGTCTGTTTTGTCCTGTCTAG
Seq C2 exon
AAGTGAAGGGGCTCCTGCCCACAAGTGTGTCACCCCGTGTGTCCCTGCACTGCGGTAAGAGTGGTGGAGGAGACGGGTGCTTCCTCAGATGTCACTCTGGCATTCACCTCTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356-SCUBE2:NM_020974:11
Average complexity
IR-C
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:
PF146701=FXa_inhibition=WD(100=85.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACCAATGAGTGCAGCATCA
R:
GAAGAGAGGTGAATGCCAGAGTG
Band lengths:
238-659
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)