HsaINT0132633 @ hg38
Intron Retention
Gene
ENSG00000196504 | PRPF40A
Description
pre-mRNA processing factor 40 homolog A [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:152659093-152659356:-
Coord C1 exon
chr2:152659270-152659356
Coord A exon
chr2:152659190-152659269
Coord C2 exon
chr2:152659093-152659189
Length
80 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
AAATTATTTGTGTTTTTTAGGGG
3' ss Score
9.2
Exon sequences
Seq C1 exon
CATGAATGTCAGCATCATCATTCAAAGAACAAGAAACATTCTAAGAAATCTAAAAAACATCATAGGAAACGTTCCCGCTCTCGATCG
Seq A exon
GTAAGGGAATTTATTATATGGTGTCATGAGTGTATTAAAGTGTTAGCATTATTATGAATGAAATTATTTGTGTTTTTTAG
Seq C2 exon
GGGTCAGATTCAGATGATGATGATAGCCATTCAAAGAAAAAAAGACAGCGATCAGAGTCTCGTTCTGCTTCAGAACATTCTTCTAGTGCAGAGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196504:ENST00000410080:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCAGCATCATCATTCAAAGAACA
R:
TGCACTAGAAGAATGTTCTGAAGCA
Band lengths:
171-251
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