HsaINT0160005 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52554820-52555526:+
Coord C1 exon
chr3:52554820-52555021
Coord A exon
chr3:52555022-52555376
Coord C2 exon
chr3:52555377-52555526
Length
355 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTCTCCTACCCCATCCCCAGCTT
3' ss Score
6.59
Exon sequences
Seq C1 exon
GGCAGCCCTGAGGCCTGCTGGCGCTTCTACCCGAAGTTCTGGACGTCCCCTCCGCTGCACTCTTTGGGATTACGCAGCGTCTGGGTCCACCCCAGCCTTTGGGGTAGGCCCCAAGGCCTGGGCAGGGGCTGCCACCGCAATTGTGTCACCACCACCTGGAAGCCCAGCTGCTGCCCTGGTCACTATGGCAGTGAGTGCCAAG
Seq A exon
GTGAGCATTGCAGACACTGTTGACTAGCTCCTCTGTTCCCCAAGAGAGCCAAGGCACAGCTCTGGCCATTGTCCTTGAGAGAGTGTTGGGGCGTCCAGGGCTGGGGAGCTCTGGGTGGTGAGTAGATTTTACTAGCGGGAGTGCTCGGGAGAGGCATGGCGGTAGTGTGGACGGTGCAGAACCTGGGGAGGAGTGCTGGGGGGTCTGGATGTTCTCCAGGACATGGGCCTGGAGGGATCTTAGCAGTGGGCGGACATAGGTCAGGGACAGATGGCAGGGCTAGGCTGGAGGTACGTATATGGGGGTCCTGGTGAGAGCCCCTGGCCCCACCTCACTTCTCCTACCCCATCCCCAG
Seq C2 exon
CTTGCCCTGGCGGCCCCAGCAGCCCTTGTAGTGACCGTGGCGTGTGCATGGACGGCATGAGTGGCAGTGGGCAGTGTCTGTGCCGTTCAGGTTTTGCTGGGACAGCCTGTGAACTCTGTGCTCCTGGTGCCTTTGGGCCCCATTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:55
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTGGCGCTTCTACCC
R:
CTTGACAATGGGGCCCAAAGG
Band lengths:
338-693
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)