HsaINT0159966 @ hg19
Intron Retention
Gene
ENSG00000010327 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:18628]
Coordinates
chr3:52535182-52535769:+
Coord C1 exon
chr3:52535182-52535318
Coord A exon
chr3:52535319-52535653
Coord C2 exon
chr3:52535654-52535769
Length
335 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGG
5' ss Score
8.19
3' ss Seq
TGCCCACCCTCTGCCCCCAGCTA
3' ss Score
9.53
Exon sequences
Seq C1 exon
GTGCTGTTCAAAGGCTGTGATGTGAAAACCACGTTTGTCACTCATGTACCCTGCACCTCGTGCGCGGCCATCAAGAAGCAGACGTGTCCCTCAGGCTGGCTGCGGGAGCTCCCGGATCAGATAACCCAGGACTGCCG
Seq A exon
GTGCGGGCCACCCCTGTCCTTGCCTGTGTCCAGGAGCATCCTGTGGGGTGGCAGGGACTCGGGGAGCCTGACAGGCCCACAAAATGAGGAGAAGCACTCACTTATCCATGCCCCTGTGGCCCCACCTGGGTGGTGGAGATAGGCGGGGAGGAAGGGGTAAAGGCGAGGGGCAGGAGGGGTTTATGGGGCACCTGCTATGTGCTAGGCCCTGTGCTCAGCTCTGGGCCAGGCAGAGCAGGGAGGTGGGTGGGAGCCCCGGAAGCCAATGTGGGGAGGCTGGGTGGGGGCTGTGCAAGGGAGCCTTTTCCATCACCCTGCCCACCCTCTGCCCCCAG
Seq C2 exon
CTACGAAGTACAGCTGGGGGGCTCTATGGTGTCCATGAGCGGCTGCAGACGGAAGTGCCGGAAGCAAGTGGTGCAGAAGGCCTGCTGCCCTGGCTACTGGGGTTCCCGGTGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010327-STAB1:NM_015136:2
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:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGTTCAAAGGCTGTGATGT
R:
GGAACCCCAGTAGCCAGGG
Band lengths:
242-577
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)