HsaINT0119633 @ hg38
Intron Retention
Gene
ENSG00000006712 | PAF1
Description
PAF1 homolog, Paf1/RNA polymerase II complex component [Source:HGNC Symbol;Acc:HGNC:25459]
Coordinates
chr19:39385852-39386572:-
Coord C1 exon
chr19:39386482-39386572
Coord A exon
chr19:39386404-39386481
Coord C2 exon
chr19:39385852-39386403
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CTCTCTCCACTCCCTTCCAGATG
3' ss Score
10.85
Exon sequences
Seq C1 exon
GAGGCACGGAAGGCCCAGCTAGAAAACCACGAACCGGAGGAGGAAGAGGAAGAGGAGATGGAGACAGAAGAGAAAGAAGCTGGGGGCTCAG
Seq A exon
GTAAATCTGGACAGGCCAGACTCTGGGAGCCCTGGGAGGGTGGAAAAGTGGGTTTCATCTCTCTCCACTCCCTTCCAG
Seq C2 exon
ATGAGGAGCAGGAGAAGGGCAGCAGCAGTGAGAAGGAGGGCAGTGAAGATGAGCACTCGGGCAGCGAGAGTGAACGGGAGGAAGGTGACAGGGACGAGGCCAGTGACAAGAGTGGCAGTGGTGAGGACGAGAGCAGCGAGGATGAGGCCCGGGCTGCCCGTGACAAAGAGGAGATCTTTGGCAGTGATGCTGATTCTGAGGACGATGCCGACTCTGATGATGAGGACAGAGGACAGGCCCAAGGTGGCAGTGACAATGATTCAGACAGCGGCAGCAATGGGGGTGGCCAGCGGAGCCGGAGCCACAGCCGCAGCGCCAGTCCCTTCCCCAGTGGCAGCGAGCACTCGGCCCAGGAGGATGGCAGTGAAGCTGCAGCTTCTGATTCCAGTGAAGCTGATAGTGACAGTGACTGAGTCCCAGGGCATTCAGGGCTGGTTCAGACACCATTATTGTGAGCAGCAAAGCACTTTTCTAGTGGTCTGTTTGTGAGCCTTTCACTTGTTTGTTCCCCACCCCCAAACCTTTGCTGTTAATAAAGTCAACTTCTCTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000006712:ENST00000221265:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.945 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF039858=Paf1=PD(7.9=93.5)
A:
NA
C2:
PF039858=Paf1=PD(12.1=37.0)
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:
CGGAGGAGGAAGAGGAAGAGG
R:
CTCACCACTGCCACTCTTGTC
Band lengths:
182-260
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