HsaINT0160081 @ hg19
Intron Retention
Gene
ENSG00000136011 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:18629]
Coordinates
chr12:104149080-104149496:+
Coord C1 exon
chr12:104149080-104149245
Coord A exon
chr12:104149246-104149389
Coord C2 exon
chr12:104149390-104149496
Length
144 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
TGTGTGCCTCTGCCCTCCAGATG
3' ss Score
10.57
Exon sequences
Seq C1 exon
GCCAAGTACCACCTGTGCTCAGCAGGCTGGCTGGAGACCGGGCGGGTTGCCTACCCCACAGCCTTCGCCTCCCAGAACTGTGGCTCTGGTGTGGTTGGGATAGTGGACTATGGACCTAGACCCAACAAGAGTGAAATGTGGGATGTCTTCTGCTATCGGATGAAAG
Seq A exon
GTAACCGCCCCAGCTACACTTCAGGTTCTGGGCCACACAGCTGCTGAGCAATCCTCAGCCTGGCCAGTCACTCCCCAAGCAGAAGCAGTGCAGCCCTGGCCCCTGCCTTACTTGTGTGGGACCCTGTGTGCCTCTGCCCTCCAG
Seq C2 exon
ATGTGAACTGCACCTGCAAGGTGGGCTATGTGGGAGATGGCTTCTCATGCAGTGGGAACCTGCTGCAGGTCCTGATGTCCTTCCCCTCACTCACAAACTTCCTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136011-STAB2:NM_017564:62
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:
PF0019312=Xlink=PD(54.3=91.1),PF129472=EGF_3=PU(32.0=14.3)
A:
NA
C2:
PF129472=EGF_3=PD(64.0=44.4)
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:
CAAGTACCACCTGTGCTCAGC
R:
AGTGAGGGGAAGGACATCAGG
Band lengths:
255-399
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)