HsaINT0160085 @ hg19
Intron Retention
Gene
ENSG00000136011 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:18629]
Coordinates
chr12:104155078-104156180:+
Coord C1 exon
chr12:104155078-104155188
Coord A exon
chr12:104155189-104156051
Coord C2 exon
chr12:104156052-104156180
Length
863 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TTTCCTTTCTTTGTGTTCAGACC
3' ss Score
10.56
Exon sequences
Seq C1 exon
ACGGAGACCAGGTTTGTTGATGGAAGAGCCATTCTGCAGTGGGACATCTTTGCCTCCAATGGGATCATTCATGTCATTTCCAGGCCTTTAAAAGCACCCCCTGCCCCCGTG
Seq A exon
GTGAGTATCTAGGGTCCCTGATAACGGGCCAGGAGGAGCCCCGGTGCCCACTCACCAACAGGCAAACCATTACCAGAAGCCCTGTCCTCCTCCCTCTTCCTCCAGAGACTGGAGGAGCCTCCAGCCTCCAACCTCCAAGGTAGCTGGCCAGGACCGCCCAACCCTGCTTCCTGCCATCCCCACTCCCAAGCATTAGCAACACAGCACCAGTCACCATTAATATCTGTTGAATGAAAGGGGGAGGATGGGCCACCAAAGGAAGCGCTGGAAGGGGAGTGAGAAATCCTAAGCTATGGTTTGGCCCCTCCACTTCGTAGCATCTCTGAGTCCCAATTTTCTCATCTGCAAAATGGGGCTCATAATGCCTCCCTCCTGGGTTTTGGGAAGGATTGTAAGTTAGAAATGGAAAACACTTAGAACAGCCCCTGACACACAGTACATGCTATATAAAAGTTGGTGATGGTGGTTGTTAGTATTCTTTTTTGCAAAAGCATGAGGGGAGAGGTGAGCTGCTGGAGAGTTCCACAGCATAGTGGTTAAGCACAGAAGCTCCAAAGCCAGACTGGGTTCAAAGCCCACTTCCACCACTGACTGGCTGTGTGATATCGGGCAAGTGCTTCACCTCTCTGTGCCCCAGTTCTCCCACAATAATAACTCTCCCTATCTCTTTGGGTTATTATCACACTTCAATGGGTTATTTCACAGAAGGGTATTAGACCCTGGCAGTAATAAGGGCCAGATACATGTTAACATGTCAGTATTTTTATCCCCACTGGCTCCAGAATGCCTCGGGCCACCAAGGGTTCCCCTTTTGGGGAGTCAGAAGTTTTAAGAATGGGCCCCTTTCCTTTCTTTGTGTTCAG
Seq C2 exon
ACCTTGACCCACACTGGCTTGGGAGCAGGGATCTTCTTTGCCATCATCCTGGTGACTGGGGCTGTTGCCTTGGCTGCTTACTCCTACTTTCGGATAAACCGGAGAACAATCGGCTTCCAGCATTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136011-STAB2:NM_017564:66
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=PD(27.1=86.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGAGACCAGGTTTGTTGATG
R:
CAAAATGCTGGAAGCCGATTGT
Band lengths:
238-1101
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)