HsaINT0132648 @ hg38
Intron Retention
Gene
ENSG00000110844 | PRPF40B
Description
pre-mRNA processing factor 40 homolog B [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr12:49635365-49635993:+
Coord C1 exon
chr12:49635365-49635473
Coord A exon
chr12:49635474-49635842
Coord C2 exon
chr12:49635843-49635993
Length
369 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CTGATCCTGTGGCTCCCTAGGAA
3' ss Score
10.28
Exon sequences
Seq C1 exon
GCGGGCAGAACAGACCTTTGGGGAGCTGGAGGTCTGGGCTGTGGTCCCTGAGAGGGATCGAAAAGAGGTTTATGATGATGTCCTCTTCTTCCTGGCCAAGAAGGAGAAG
Seq A exon
GTAATGGTCCCTGGGCAGAATCCTTCAGCCCATCTCATCCTGGACTTTCCTTGTCTTTGCTTTGTTATGGACCCTCGCCATTTACTTCTCTACTTCCCCAGTGTCCCAGCTTCTGACTTGGAAGCTGGTATGGGACTTGCACATCTCATTTCTGCTCTGGGCCTATAGTCCTGGGTGTAGCAGGGAGGAGGAGTCTCTGAGAGATGGGTCTGTAACCTGTACTCCCTCCCCTTCCCTGAGACATGAAAGTCTTGAGTATGGCCTTCTTCCTAGGGTTCCCTAGCTACCTTTCCCCAGGTCCTCCTCTGCCCAGGCCTACTTGGGTAGCTCTGGCCTGCCCTGCCTCACCCTGATCCTGTGGCTCCCTAG
Seq C2 exon
GAACAGGCCAAGCAGCTCCGGCGCCGCAATATCCAGGCCCTAAAGAGCATCCTGGATGGGATGAGTAGTGTCAACTTCCAAACCACGTGGTCCCAGGCCCAGCAGTACCTCATGGATAACCCCAGCTTTGCTCAGGACCATCAGCTGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110844:ENST00000380281:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.196
Domain overlap (PFAM):
C1:
PF0394210=DTW=PD(4.0=13.5)
A:
NA
C2:
NO
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:
AGAACAGACCTTTGGGGAGCT
R:
TCTGCAGCTGATGGTCCTGAG
Band lengths:
254-623
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