HsaALTD0003076-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000135486 | HNRNPA1
Description
heterogeneous nuclear ribonucleoprotein A1 [Source:HGNC Symbol;Acc:5031]
Coordinates
chr12:54676863-54677751:+
Coord C1 exon
chr12:54676863-54677018
Coord A exon
chr12:54677019-54677022
Coord C2 exon
chr12:54677596-54677751
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTATCC
5' ss Score
5.06
3' ss Seq
GCCCTCTTTCCCATTCATAGGAA
3' ss Score
9.94
Exon sequences
Seq C1 exon
GTGGTTATGGAGGAGGCGGCCCTGGTTACTCTGGAGGAAGCAGAGGCTATGGAAGTGGTGGACAGGGTTATGGAAACCAGGGCAGTGGCTATGGCGGGAGTGGCAGCTATGACAGCTATAACAACGGAGGCGGAGGCGGCTTTGGCGGTGGTAGTG
Seq A exon
GTAG
Seq C2 exon
GAAGCAATTTTGGAGGTGGTGGAAGCTACAATGATTTTGGGAATTACAACAATCAGTCTTCAAATTTTGGACCCATGAAGGGAGGAAATTTTGGAGGCAGAAGCTCTGGCCCCTATGGCGGTGGAGGCCAATACTTTGCAAAACCACGAAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135486-7-7,8-7-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.682 A=NA C2=0.789
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF116273=HnRNPA1=WD(100=67.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAACCAGGGCAGTGGCTATG
R:
TCCACCACCTCCAAAATTGCT
Band lengths:
107-111
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)