HsaALTA0006714-1/2 @ hg19
Alternative 3'ss
Gene
ENSG00000196504 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:16463]
Coordinates
chr2:153573870-153574446:-
Coord C1 exon
chr2:153574345-153574446
Coord A exon
NA
Coord C2 exon
chr2:153573870-153573945
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTTCTTGTTGGTATGTGTAGCGG
3' ss Score
4.26
Exon sequences
Seq C1 exon
CCCTCCGCCTCGAGCACCGCGCGCGCGCATTCGGTCCCAGCCACCGCTAACACTACAGGCTGCTTACCCCCGCCCCCTCCACCCTACCCCTGGCGGCCTCAG
Seq A exon
NA
Seq C2 exon
CGGCAGTGGCCGCCGGCGGAGCAGTCTGAGCCCGACGATGAGGCCGGGGACGGGAGCTGAGCGTGGAGGCCTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196504-0-4,0-0-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATTCGGTCCCAGCCAC
R:
ATGAGGCCTCCACGCTCAG
Band lengths:
151-345
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)