HsaINT0146212 @ hg19
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9087438-9088360:-
Coord C1 exon
chr11:9088244-9088360
Coord A exon
chr11:9087528-9088243
Coord C2 exon
chr11:9087438-9087527
Length
716 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CTCTTTTGCTTCTCTTGTAGAGC
3' ss Score
9.72
Exon sequences
Seq C1 exon
TGACCTGTAACCATGGGAACGGTGGGTGCCAGCACTCCTGTGACGATACAGCCGATGGCCCAGAGTGCAGCTGCCATCCACAGTACAAGATGCACACAGATGGGAGGAGCTGCCTTG
Seq A exon
GTGAGTGGCAACCCCAACACTGAGTGAGGGTCTGCACCAGCCTGCCTGTCCCTACCCCTACCCCTTAATGGTGTTTAGCACAGATGCAGGCTGTTTCCTGTGCATTTGCCCCCCCAGCAGGCCCTGTGCTGCTTCGCATGCTACAGTGGGAGTGGTCTAGGCCTGTGGGGAAGGCCCCTCTCTCCCTGTGTGACCTTGGGAAGCCCTTCCTCCTCTCCTGGACTAGGCTGCTCCTAACGCTGGTATTCCAGAGACTGGCACAACACCTCCCAGGAGGCCAGGGCAGCACGAAGTTAGAGCTGTTTATAATGATGCGGCACTTCTGGCCAGCAGGAGCCAGGGCCGTATATTTCTGGCGGGATGCCTGCCTTGCCCTTCACGGTGTGTCCTTCACTAGCTCCATTTTAGAGGTTTCCAGGCCCAAGGCTCTTTTTCTCCTCGACTCAGGGGACTGAAGCTTGCATTCCCTAGTGTCTCTTTGGTCAGTGCAATATACCTCCAAAATCTTTTCCATGTTTAATGTTTGCTAAGGATCTGTGGCCCTTTAACGGGCTGTGTCTCCCACAGAGCCTCATTACAACACATTTTTATTGCGTGAACAGAGTCACATATCTTTCATTCCTCTTATGTCTGGGATTTCAGCAAACACAGTTGTATGGGGATGAGCAATCTAACTCATTCAGTCTGAGAACCGTGCTCTTTTGCTTCTCTTGTAG
Seq C2 exon
AGCGAGAGGACACTGTCCTGGAGGTGACAGAGAGCAACACCACATCAGTGGTGGATGGGGATAAACGGGTGAAACGGCGGCTGCTCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356-SCUBE2:NM_020974:6
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=0.226
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=90.0)
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:
TGACCTGTAACCATGGGAACG
R:
CATGAGCAGCCGCCGTTTC
Band lengths:
206-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)