HsaINT0160008 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52555860-52556246:+
Coord C1 exon
chr3:52555860-52555967
Coord A exon
chr3:52555968-52556052
Coord C2 exon
chr3:52556053-52556246
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CACTCCCTCCCTGCCCTCAGTGG
3' ss Score
8.67
Exon sequences
Seq C1 exon
AGCTGCAGCCTGTGTGTACCCCACCCTGTGCACCCGAGGCTGTGTGCCGTGCAGGCAACAGCTGTGAGTGCAGCCTGGGCTATGAAGGGGATGGCCGTGTGTGTACAG
Seq A exon
GTAAGCAGATGGGCGGGGACATGGAGGTGGGAGGCCCCCACTCCCCTGCAGTCACTAGGTCCAACCACTCCCTCCCTGCCCTCAG
Seq C2 exon
TGGCAGACCTGTGCCAGGACGGGCATGGTGGCTGCAGTGAGCACGCCAACTGTAGCCAGGTAGGAACAATGGTCACTTGTACCTGCCTGCCCGACTACGAGGGTGATGGCTGGAGCTGCCGGGCCCGCAACCCCTGCACAGATGGCCACCGCGGGGGCTGCAGCGAGCACGCCAACTGCTTGAGCACCGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:58
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:
NO
A:
NA
C2:
PF129472=EGF_3=WD(100=55.4),PF129472=EGF_3=PU(50.0=29.2)
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:
CTGTGTGTACCCCACCCTGT
R:
TGACCATTGTTCCTACCTGGC
Band lengths:
174-259
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)