HsaINT0159990 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52550708-52551125:+
Coord C1 exon
chr3:52550708-52550784
Coord A exon
chr3:52550785-52550999
Coord C2 exon
chr3:52551000-52551125
Length
215 bp
Sequences
Splice sites
5' ss Seq
CAGGTCCAG
5' ss Score
-0.26
3' ss Seq
CTCTGGCCATCTCCCCTTAGAGG
3' ss Score
8.23
Exon sequences
Seq C1 exon
CTGCGTGCAGGACTCGGCCGGAGCCTCCACCTGCGCCTGTGCTGCGGGATACTCCGGCAATGGCATCTTCTGTTCAG
Seq A exon
GTCCAGCCACACGGATGCCCAGGGCCCTCCCTGAAATTTTGGGGTGGCTGTCCCCACAGAGCCCCCTTCACTTCCTCTAGGCCCAGCCCCCCTCACTGTCCCATCTCAGGACTCACCCTTCCCTCTGACCTTTTCCTTTCTCTCACGCCCTCCTCTCCTGTCCTGCCTCCGGCCCCGTGCCTGCTCCTGAGGACTCTCTGGCCATCTCCCCTTAG
Seq C2 exon
AGGTGGACCCCTGCGCCCACGGCCATGGGGGCTGCTCCCCTCATGCCAACTGTACCAAGGTGGCACCTGGGCAGCGGACATGCACCTGCCAGGATGGCTACATGGGCGACGGGGAGCTGTGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:41
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:
PF129472=EGF_3=PD(70.6=88.9)
A:
NA
C2:
PF129472=EGF_3=WD(100=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGCTGCGGGATACTCC
R:
TCCCCGTCGCCCATGTAG
Band lengths:
157-372
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
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)