HsaINT0119640 @ hg38
Intron Retention
Gene
ENSG00000006712 | PAF1
Description
PAF1 homolog, Paf1/RNA polymerase II complex component [Source:HGNC Symbol;Acc:HGNC:25459]
Coordinates
chr19:39388762-39389015:-
Coord C1 exon
chr19:39388947-39389015
Coord A exon
chr19:39388866-39388946
Coord C2 exon
chr19:39388762-39388865
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
CAGTGCCTCCATCTCCCTAGATG
3' ss Score
7.88
Exon sequences
Seq C1 exon
ATCTCACAGCATTACAGCAAACCCCGAGTCACACCGGTGGAGGTCATGCCTGTCTTCCCAGACTTTAAG
Seq A exon
GTCAGGCCCAAGGTGGGAGGTAGAAAGGGACAGCCTATTTGTGCCTGTTCCCATCTAACCCCAGTGCCTCCATCTCCCTAG
Seq C2 exon
ATGTGGATCAATCCATGTGCTCAGGTGATCTTTGACTCAGACCCAGCCCCCAAGGACACGAGTGGTGCAGCTGCGTTGGAGATGATGTCTCAGGCCATGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000006712:ENST00000221265:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.228 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF039858=Paf1=FE(5.2=100)
A:
NA
C2:
PF039858=Paf1=FE(13.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCACAGCATTACAGCAAACCC
R:
TCATGGCCTGAGACATCATCT
Band lengths:
167-248
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