HsaALTA0007392-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000137154 | RPS6
Description
ribosomal protein S6 [Source:HGNC Symbol;Acc:10429]
Coordinates
chr9:19378823-19379616:-
Coord C1 exon
chr9:19379461-19379616
Coord A exon
chr9:19378863-19378916
Coord C2 exon
chr9:19378823-19378862
Length
54 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
TTCATTGTATGCTCTTGCAGGGT
3' ss Score
9.78
Exon sequences
Seq C1 exon
CTGAACATCTCCTTCCCAGCCACTGGCTGCCAGAAACTCATTGAAGTGGACGATGAACGCAAACTTCGTACTTTCTATGAGAAGCGTATGGCCACAGAAGTTGCTGCTGACGCTCTGGGTGAAGAATGGAAGGTAAAAGTTGACAAATTGTTGCAG
Seq A exon
GGTTATGTGGTCCGAATCAGTGGTGGGAACGACAAACAAGGTTTCCCCATGAAG
Seq C2 exon
CAGGGTGTCTTGACCCATGGCCGTGTCCGCCTGCTACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137154-5-5,5-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.225
Domain overlap (PFAM):
C1:
PF0109214=Ribosomal_S6e=PD(94.5=57.8),PF121563=ATPase-cat_bd=WD(100=66.7)
A:
NA
C2:
PF0109214=Ribosomal_S6e=FE(72.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGACGATGAACGCAAACT
R:
CGGCCATGGGTCAAGACAC
Band lengths:
135-189
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)