HsaINT0146214 @ hg19
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9080850-9082071:-
Coord C1 exon
chr11:9081955-9082071
Coord A exon
chr11:9080973-9081954
Coord C2 exon
chr11:9080850-9080972
Length
982 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCC
5' ss Score
7.58
3' ss Seq
CCAATGCTTTCCTGTTGCAGATA
3' ss Score
9.97
Exon sequences
Seq C1 exon
AAACGTGTGCTGTCAACAATGGAGGCTGTGACCGCACCTGTAAGGATACTTCGACAGGTGTCCACTGCAGTTGTCCTGTTGGATTCACTCTCCAGTTGGATGGGAAGACATGTAAAG
Seq A exon
GTAGCCTTCACCTCCCCAGGGAGACTGGGTGCCCTGTTATGGAGGGAGGGCCCATGCCGCTAACATATGGGGATAAAGGCAACATACCCTCCATACCCCACGTGACTCGAGATTTGCTTATGATTCATATCAATGGGAGCTTTTTCCCCCTGGGCTAGTGGAAGGTTATAACTGAGTAAGCTTAATTAGAACCAACACTTAATTACACTAATTGTTGAGGAGGTCAGCCTCTACAAGCATCAAATAATTCATTTCAGACAGTGGCCTTATTAGAAAAAGGCAGTTAAAGGAAGCATTCATTTGCAGGAGATAATATCAACATATCATACATAATAGCCTAGAGATTATTATATAAATAACAGTCAAGATGATTATCCAGAGGACTTAATGAATAACTGTACCATTAACTTTTACTGATGAAGAGCGACCCCAATGACTTGCTCATATTTCATGGGCAAGAGTACAAAGGATTAGCCCTTTAGCATGATAAAAAGTAGATAACCAATTGCCAGACGAAACTGGGAAAAGATAAGATTGAGTATCAGGAATCATTTTAAAACATTGAGGCTATTTGATCATTGTGTAATTTGCCAAAACAAATGCTCTAGTCCTTTATAGCTTTAATCATTAAACTTGAATACATAGTGTACTAAAGAGACCCATCTTACCTTGAGAGAGCAATACAAAGATGAGAATATAACAGGACGTCATCATTCTTTCCCAGAGTTTGTTTCCTTAATGCCAATCAAGGGCATCATAAGTCAGCGTTCTCAAGACGATGAAACACTTGTCTTTCAAAACTGGTTAAGCCAGATAAGAAAACATGTATAAGGTTAAAAACATCAGCAAACATTCTTAAATGCTTTTGTGAGTCTTTTTCTTAATTTCAGAGACTAATGAACACACACAATGGCCCTTCAGGGAGTTGTGGGAAATGAGGCAAGTATTGCTCTCTGATATGCCCAATGCTTTCCTGTTGCAG
Seq C2 exon
ATATTGATGAGTGCCAGACCCGCAATGGAGGTTGTGATCATTTCTGCAAAAACATCGTGGGCAGTTTTGACTGCGGCTGCAAGAAAGGATTTAAATTATTAACAGATGAGAAGTCTTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356-SCUBE2:NM_020974:8
Average complexity
IR-S
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=90.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=85.7),PF0764510=EGF_CA=PU(0.1=0.0)
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:
ACGTGTGCTGTCAACAATGGA
R:
CTTGGCAAGACTTCTCATCTGT
Band lengths:
238-1220
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)