HsaINT0160011 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52556346-52556704:+
Coord C1 exon
chr3:52556346-52556490
Coord A exon
chr3:52556491-52556570
Coord C2 exon
chr3:52556571-52556704
Length
80 bp
Sequences
Splice sites
5' ss Seq
AGGGTGTGT
5' ss Score
4.51
3' ss Seq
TGCACCCCTCCATTCTGCAGAGA
3' ss Score
8.25
Exon sequences
Seq C1 exon
AACACACGGCGCTGTGAGTGCCACGCAGGCTACGTAGGCGATGGACTGCAGTGTCTGGAGGAGTCGGAACCACCTGTGGACCGCTGCTTGGGCCAGCCACCGCCCTGCCACTCAGATGCCATGTGCACTGACCTGCACTTCCAGG
Seq A exon
GTGTGTCCCCCTGCCCACTCCCAGTACCCATTTCATTCCTCAGAGCCGGCCAGCTGACCATGCACCCCTCCATTCTGCAG
Seq C2 exon
AGAAACGGGCTGGCGTTTTCCACCTCCAGGCCACCAGCGGCCCTTATGGTCTGAACTTTTCGGAGGCTGAGGCGGCATGCGAAGCACAGGGAGCCGTCCTTGCTTCATTCCCTCAGCTCTCTGCTGCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:60
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(44.7=34.7)
A:
NA
C2:
PF0019312=Xlink=PU(43.6=91.1)
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:
CAGTGTCTGGAGGAGTCGGAA
R:
GCCTCAGCCTCCGAAAAGTTC
Band lengths:
170-250
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)