HsaALTA0006714-2/2 @ 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
chr2:153573946-153574139
Coord C2 exon
chr2:153573870-153573945
Length
194 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CCTCCCCCCCCCCCATGCAGGCG
3' ss Score
10.99
Exon sequences
Seq C1 exon
CCCTCCGCCTCGAGCACCGCGCGCGCGCATTCGGTCCCAGCCACCGCTAACACTACAGGCTGCTTACCCCCGCCCCCTCCACCCTACCCCTGGCGGCCTCAG
Seq A exon
GCGACGCCGAGTGAGGCTGAGGCTGGGGGCGAATCGCCGCAGAGCTGCGTGTCGGCGGCGCATTCTGATTGGACAGCGGGGAAGCCCGTCAGCCTGTTGGCCCCGCTGATCCCGCCCCGTAGCGCAGGGCAGCCTTTAACCTTTAGCCCCAGTGGGCGCCAGCCACTCAGATCGCTTCTTGTTGGTATGTGTAG
Seq C2 exon
CGGCAGTGGCCGCCGGCGGAGCAGTCTGAGCCCGACGATGAGGCCGGGGACGGGAGCTGAGCGTGGAGGCCTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196504-0-4,0-0-2/2
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
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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)