HsaINT0132653 @ hg19
Intron Retention
Gene
ENSG00000110844 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:25031]
Coordinates
chr12:50025184-50025708:+
Coord C1 exon
chr12:50025184-50025327
Coord A exon
chr12:50025328-50025642
Coord C2 exon
chr12:50025643-50025708
Length
315 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
TGTCTTCTTTGTATCCATAGATA
3' ss Score
10.68
Exon sequences
Seq C1 exon
ATGCCCCCTCCAGGGATCCCCCCACCCTTTCCTCCGATGGGGCTACCCCCCATGAGTCAGAGACCACCAGCTATCCCCCCCATGCCACCTGGCATCCTGCCCCCAATGCTTCCACCAATGGGGGCGCCACCACCACTCACACAG
Seq A exon
GTAATTGTCTCTCCTCCCCTGGGGCCTCAGAAAACCCTGTCAGTTTAGCTGGGGGTGGAGATAAGAGCGGGCATGTAGGCCTCAGAAACTGGGGAAGGAAGGGAGCTTTGGGCCAAACCCATGTGGATTTGTCTGCTGAATGACTGAGACAACTCTCAGGCAAGGTGAGAGGCCAGAATCTGGGGATTGCCTGAGGAAGTGCCCAAGTGAGGGTCATGGCTCCAGTGAGATGTCTCAGGACCCTTTGAGGTACCCTGTCCCTCCTGTTCCAGCCCTTACCTTGGTGGTTGGTTTCTGTCTTCTTTGTATCCATAG
Seq C2 exon
ATACCAGGAATGGTACCTCCGATGATGCCAGGAATGCTGATGCCAGCGGTGCCTGTCACCGCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110844-PRPF40B:NM_001031698:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.991 A=NA C2=0.363
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)