HsaINT0160019 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52558116-52558511:+
Coord C1 exon
chr3:52558116-52558229
Coord A exon
chr3:52558230-52558315
Coord C2 exon
chr3:52558316-52558511
Length
86 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGC
5' ss Score
6.16
3' ss Seq
CACCAACCCTGCTCTTCTAGGAC
3' ss Score
8.63
Exon sequences
Seq C1 exon
GCGGAAGATGATGCTGATGACGACTTCTCACCGTGGCAAGAAGGGACCAACCCCACCCTGGTCTCTGTCCCCAACCCTGTCTTTGGCAGCGACACCTTTTGTGAACCCTTCGAT
Seq A exon
GTAAGCATGGAAGTGAAGAAGTGTGGCAGATGTGGGATGGGCCCAGGCCCTGGTCACACCCTCCACCACCAACCCTGCTCTTCTAG
Seq C2 exon
GACTCACTGCTGGAGGAGGACTTCCCTGACACCCAGAGGATCCTCACAGTCAAGTGACGAGGCTGGGGCTGAAAGCAGAAGCATGCACAGGGAGGAGACCACTTTTATTGCTTGTCTGGGTGGATGGGGCAGGAGGGGCTGAGGGCCTGTCCCAGACAATAAAGGTGCCCTCAGCGGATGTGGGCCATGTCACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:68
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTCACCGTGGCAAGAAGG
R:
GTGCATGCTTCTGCTTTCAGC
Band lengths:
179-265
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)