HsaINT0160000 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52553521-52554136:+
Coord C1 exon
chr3:52553521-52553580
Coord A exon
chr3:52553581-52553959
Coord C2 exon
chr3:52553960-52554136
Length
379 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TCTTTGCTGCACCCCACCAGGTG
3' ss Score
7.17
Exon sequences
Seq C1 exon
AGAAATGTCACCGCCGCCGCCCAGGGCTTCGGTTACAAGATCTTCAGCGGCCTCCTGAAG
Seq A exon
GTACTGCTCCCGTGTGGGCCTGTCATTGTGGACACACATGCACGTGTAAGTGTGTGCAAGTGTGTATGCGTACCTGTGTGTGCATACCCACCTGTGTGCACACTGTCCCGTGTGAGCCTGTGTGAACTCATGTGTGCACAAGCCACATCTGTGTGCATGTGCACCCCAGGTTGAGCACATGGGTGTGCTTATGTGTGCCCACATTCCTGACAGCAGTGTGCACAGTTGAGATGTGTGCACACACATGCCTGCCTGGGATGGTCACAGATGAGTGTGGGTGAGTGTGGAGCCCCTTCCTGCTCTGTGGCACAGCCCCCTGCCTTTGCTAACTAGTCTCTGACTGGGCAGCGACTGCCACATCTTTGCTGCACCCCACCAG
Seq C2 exon
GTGGCCGGCCTCCTGCCCCTGCTTCGAGAGGCATCCCATAGGCCCTTCACAATGCTGTGGCCCACAGACGCCGCCTTTCGAGCTCTGCCTCCGGATCGCCAGGCCTGGCTGTACCATGAGGACCACCGTGACAAGCTAGCAGCCATTCTGCGGGGCCACATGATTCGCAATGTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:50
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=0.139
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=PU(7.6=50.0)
A:
NA
C2:
PF0246917=Fasciclin=FE(43.9=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAATGTCACCGCCGCC
R:
CGACATTGCGAATCATGTGGC
Band lengths:
235-614
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)