HsaINT0159985 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52549439-52550254:+
Coord C1 exon
chr3:52549439-52549522
Coord A exon
chr3:52549523-52550058
Coord C2 exon
chr3:52550059-52550254
Length
536 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
TCCCATCCCCACGCCGACAGGTG
3' ss Score
7.33
Exon sequences
Seq C1 exon
GACACACCCAGGAAGAGCTGTGTCTACCGATCTGGCTTCTCCTTCTCCCGGGGCTGCTCTTACACATGTGCCAAGAAGATCCAG
Seq A exon
GTTTGCCCTGAAGCCCCCACCCCAAGCCTGTCCAGAGAGAAGGAGGTGGGAGTGGGTGGGGGCCCAGGGAGGAGCCCAGTTTGGATCTTAAGGACAGAGACTGGGCTGGGACTAGGGTGAGGCCAGAACCCAGAGGAAGGAGATGGGAGAGAGGTCTGAAGTCAGAGGGCTAGTGTTTGTCCCTGTGTCCACTCCCCCAGGGAGAGGGAGTGGAGACGGTGAGAGGAAGAAAGGGCAGTCCAGAGCTGGTTCCATCAGCGAAACCCCAGGGGCAGCAACTTGGCCTGGCTTGGCCCCTCACTGTGGGATCTGGGTGCAGCCCTTCCTTGCTTGAGCCTCAGTTTCCCCACCCTGCCAGAGGGAGGGTTTTAGGAGGTATCTCTGTGTCTCTTTCAGCTCTGAGCTGCTCATCCCTGGGACTGGGGTTCTGAGGGGTTTTGCTCCATGGCTCTGTGGCCCCGAGATGCCCCCGTTCCCCTTCCCCCTGACACCTTGCTGGGCCTCTCTCGCCCTCTCTCCCATCCCCACGCCGACAG
Seq C2 exon
GTGCCGGACTGCTGCCCTGGTTTCTTTGGCACGCTGTGTGAGCCATGCCCAGGGGGTCTAGGGGGGGTGTGCTCAGGCCATGGGCAGTGCCAGGACAGGTTCCTGGGCAGCGGGGAGTGCCACTGCCACGAGGGCTTCCATGGAACGGCCTGTGAGGTGTGTGAGCTGGGCCGCTACGGGCCCAACTGCACCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:37
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:
PF079748=EGF_2=WD(100=54.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCAGGAAGAGCTGTGTCT
R:
GTGCAGTTGGGCCCGTAG
Band lengths:
271-807
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)