HsaALTA0006715-2/3 @ hg38
Alternative 3'ss
Gene
ENSG00000196504 | PRPF40A
Description
pre-mRNA processing factor 40 homolog A [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:152663876-152664252:-
Coord C1 exon
chr2:152664138-152664252
Coord A exon
chr2:152663942-152663967
Coord C2 exon
chr2:152663876-152663941
Length
26 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TTCTTTAGTTTTTTCATTAGGAT
3' ss Score
6.29
Exon sequences
Seq C1 exon
ATATTTTTAGATGAATTACATGAACATGGACAACTGCATTCTATGTCATCTTGGATGGAATTGTATCCAACTATTAGTTCTGATATTAGATTCACTAATATGCTTGGTCAGCCTG
Seq A exon
GATCAACTGCACTTGATCTTTTCAAG
Seq C2 exon
TTTTATGTTGAGGATCTTAAAGCACGTTATCATGACGAGAAGAAGATAATAAAAGACATTCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196504-69-62,69-61,69-60-2/3
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=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=FE(67.9=100)
A:
NA
C2:
PF0184614=FF=PD(17.9=32.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGAACATGGACAACTGCA
R:
ACGTGCTTTAAGATCCTCAACA
Band lengths:
125-151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains