HsaINT0142998 @ hg19
Intron Retention
Gene
ENSG00000137154 | RPS6
Description
ribosomal protein S6 [Source:HGNC Symbol;Acc:10429]
Coordinates
chr9:19379485-19380235:-
Coord C1 exon
chr9:19380188-19380235
Coord A exon
chr9:19379617-19380187
Coord C2 exon
chr9:19379485-19379616
Length
571 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TCCCCCCTTTTAATCCTTAGCTG
3' ss Score
8.37
Exon sequences
Seq C1 exon
CCTCTTTTCCGTGGCGCCTCGGAGGCGTTCAGCTGCTTCAAGATGAAG
Seq A exon
GTAGGTGATGGTGGCGAGTGTTAGACTGGGTTTGGGGAACGTGAATCGAGTCCCAGAACGCGGCATTGCCTCAGTTCCAGCACTCCAGGATCCTGGCTTTAGGTGGAGAAGGGTCTCAAGTAGGAGAAGGCTCGCCTTTCTGGGGCATGGAGCTTTTTGGCCGAACGGATGGCAGGCGATTGCGGCTGGAGCCGCGGCGGGCCGGGAGCGCCATGGTGGCGTCCCCGCGCCCAGCCGGGACGGATGCGGCGTGTTGCCCAGTTTGCGGCAGGCCTGTGGTGCGGCTCTTGACCCCGGCTTTCTTGCTTCGGGAGGGTGAACGGCTGCGGAGTGCCCTCGCCCCCAGAGTCATTCCGCGGGGCTTGAGGGGAAAACGTCCTGCTGAGTGCGGCGCTTCTTGACTGCTACTCTGCTTTCACGTGCTTTTAGTGAGTACAGTCGGCATCTTATATTTCCTGCTTGTGTGGAGGCAACATGAAAGGCTTTTTGCAGTGGAATTAACTTTGTAGATGGCTCTACAATTACCTGTATAGATAGTTTCGTAAACTATTTCCCCCCTTTTAATCCTTAG
Seq C2 exon
CTGAACATCTCCTTCCCAGCCACTGGCTGCCAGAAACTCATTGAAGTGGACGATGAACGCAAACTTCGTACTTTCTATGAGAAGCGTATGGCCACAGAAGTTGCTGCTGACGCTCTGGGTGAAGAATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137154-RPS6:NM_001010:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0109214=Ribosomal_S6e=PU(1.8=50.0)
A:
NA
C2:
PF0109214=Ribosomal_S6e=PU(14.6=93.3)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)