HsaINT1028106 @ hg38
Intron Retention
Gene
ENSG00000110844 | PRPF40B
Description
pre-mRNA processing factor 40 homolog B [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr12:49641908-49642372:+
Coord C1 exon
chr12:49641908-49642024
Coord A exon
chr12:49642025-49642234
Coord C2 exon
chr12:49642235-49642372
Length
210 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGG
5' ss Score
2.87
3' ss Seq
CGTGTCCCTTCTTTCCTCAGCTG
3' ss Score
10.78
Exon sequences
Seq C1 exon
GACCGGGGCTTCTGCGTGGAGGTGAACACGGCCTTTGAGGACTTCGCCCACGTCATAAGCTTTGACAAGAGGGCTGCCGCACTGGACGCAGGCAACATCAAGCTGACCTTCAATAGT
Seq A exon
GTGAGGGGCTGGGCGGGGCGTGGGAAGTTCTCTAATTCATCTGTGTCTTGCTCCATTCCTTCTCACTCACTGTCCCACTGACTATATTCCCAATTCAGGGGATGGTGGTAGAAGCCCAGACCCTAACTTTCCACCTCCTAAGGTATGCCTGAGTGGGACCTGGCATCCACCCTCCTGGGTGACCCTGTTCCGTGTCCCTTCTTTCCTCAG
Seq C2 exon
CTGCTGGAGAAAGCAGAGGCACGGGAGAGGGAGCGGGAGAAGGAGGAGGCACGCAGGATGCGGCGCAGGGAAGCTGCCTTTCGAAGCATGCTGAGGCAGGCTGTGCCTGCTCTGGAGCTAGGCACTGCCTGGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110844:ENST00000380281:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.293
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0184614=FF=PU(46.2=52.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTGCGTGGAGGTGAACAC
R:
GGCAGTGCCTAGCTCCAGAG
Band lengths:
238-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains