HsaINT0132650 @ hg38
Intron Retention
Gene
ENSG00000110844 | PRPF40B
Description
pre-mRNA processing factor 40 homolog B [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr12:49636716-49637584:+
Coord C1 exon
chr12:49636716-49636849
Coord A exon
chr12:49636850-49637469
Coord C2 exon
chr12:49637470-49637584
Length
620 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
ACTGGCCTCTCCCTGCTCAGACC
3' ss Score
9.21
Exon sequences
Seq C1 exon
ACATGGACAAGGAAGATGCACTGATCTGTTTTGAGGAGCACATCCGAGCTTTGGAGAGGGAAGAGGAGGAGGAACGGGAGCGGGCCCGGCTTCGGGAGCGACGCCAACAACGCAAGAATCGGGAGGCCTTCCAG
Seq A exon
GTATCTTTGCTGTCCTTTCTAGATCAGAGCTCAGCTCTGCCCTAGAGCACAACCTCTTCACCCATTCCCTGCCCCCTTCTGGATACGCTGCCTGTTCTTTCTGTGCCTAGCCCTGTCCAAGCTCTATGAGACCTCTCTCTGCCTGCAGTCTGTTTCTGCTGTACCTCCTCAATTCTGGACTGTGCTCTTCTAGGGAGACTAGATGTATGCACCACCCAGAAACTGCCAGTAGAGAGCACCCTACAGGCATGACTTGGCAGCTAGGCCATGTTTATTTCCCTTGGTGGGGCACCCGACAGGCAGAGTTTATTCCCTCAGCTTGGGGGTGGCAGTGGTGGTGGTAGTGCTAGGGGTTACTGCAGGCAGGTTTCTGTTTCTTTGCATCCCGGGACTGGCTTGTTCTCACCTTTTTGTTCTGTCCCTCTCTGTGTATTTACTTTCTCTCTTTTTGCATTGTTCTCAGCCTTCCATCTGCATCTCTTCATCTCTGCCTCTCTTGCCTGCATTTCCTCAATCTTGATTGTCCCTGCCTCTTCCTCTGCCATTCCCTCTCTTCCCCCTCAGTCTGTGGCTCTGCCTCCCTGTCTCACTCTCCCTATAACTGGCCTCTCCCTGCTCAG
Seq C2 exon
ACCTTCCTGGACGAGCTGCATGAGACAGGGCAGCTGCACTCTATGTCCACCTGGATGGAGCTATATCCAGCAGTCAGCACTGATGTCCGCTTTGCCAACATGCTGGGCCAGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110844:ENST00000380281:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=PU(10.7=13.3)
A:
NA
C2:
PF0184614=FF=FE(67.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGGACAAGGAAGATGCACT
R:
AGCATGTTGGCAAAGCGGA
Band lengths:
238-858
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