HsaEX6016068 @ hg19
Exon Skipping
Gene
ENSG00000196504 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:16463]
Coordinates
chr2:153508107-153515523:-
Coord C1 exon
chr2:153515462-153515523
Coord A exon
chr2:153514403-153514534
Coord C2 exon
chr2:153508107-153512912
Length
132 bp
Sequences
Splice sites
3' ss Seq
GTTATTTTCTATTCATACAGGAC
3' ss Score
7.71
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
Exon sequences
Seq C1 exon
AGAGAAGTTATAAAAAGTCAAAAAAGCATAAGAAGAAAAGTAAGAAGAGGAGACATAAATCT
Seq A exon
GACTCTCCAGAATCCGATGCTGAGCGAGAGAAGGATAAAAAAGAAAAAGATCGGGAAAGTGAAAAAGACAGAACTAGACAAAGATCAGAATCAAAACACAAATCGCCTAAGAAAAAGACTGGAAAGGATTCT
Seq C2 exon
GGTAATTGGGATACTTCTGGCAGCGAACTGAGTGAAGGGGAATTGGAAAAGCGCAGAAGAACCCTTTTGGAGCAACTGGATGATGATCAATAAATTATACCAAATATATGTTTACAGTATGATTTAAAGTCTGATTCAGACCAGGGACTCTATTTTAAGTTCAACTGAAATAACACTGGGTTTTAATTATATCACAGGAAAAAAAAAGTGCATTTAAGTATTGTTATCGTGGACTTTATAAAAGCAAAGGAAATTGAAAGTAACTTTTGATTCTGTATCAAGAATCATATTTTCATACAGTCATAACTGTCTTTCTGTGACCCTTTCACAGGGCACTGTAGGATGGATTAAAGGTGGCAATTTACTGATAACTGCAGATGTCTCTACTTTGTTCTAAAATCTAAGTCATGAGGTGATTTGATTTACTTTATAGAAGCTGGATTTTGAAGATCTAATGAAAAATTTTTTGATAATATAGTAGTACAAAAAAAGCACCAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196504-'37-45,'37-42,39-45=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGAAAAGTAAGAAGAGGAGACA
R:
TCCACGATAACAATACTTAAATGCAC
Band lengths:
265-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)