GgaINT1020595 @ galGal4
Intron Retention
Gene
ENSGALG00000027238 | PAF1
Description
PAF1 homolog, Paf1/RNA polymerase II complex component [Source:HGNC Symbol;Acc:HGNC:25459]
Coordinates
JH375654.1:17923-18203:+
Coord C1 exon
JH375654.1:17923-18044
Coord A exon
JH375654.1:18045-18136
Coord C2 exon
JH375654.1:18137-18203
Length
92 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CTGGAGGATTTCTTTGGCAGTGC
3' ss Score
1.42
Exon sequences
Seq C1 exon
GTTCGTGCAGTACAAGGCCACGTCTCTGGAGAAGCAGCACAAACACGACCTGCTGACTGAGCCTGACCTGGGCGTCACCATCGACCTCATCAACCCTGACACCTACCGCATCGACCCCAGCG
Seq A exon
GTGAGCTCGGCCCTGAGGGGCCTCTGGGGGGGGATAAAGGGGGGCGGGAGGGGAACCGACGCTGGGGGGACGCTGGAGGATTTCTTTGGCAG
Seq C2 exon
TGCTCCTGGACCCGGCGGATGAGAAGCTGCTGGAGGAGGAGATCCAGGCACCCACCAGCTCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027238:ENSGALT00000044163:5
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=0.522
Domain overlap (PFAM):
C1:
PF039858=Paf1=FE(9.8=100)
A:
NA
C2:
PF039858=Paf1=FE(5.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTACAAGGCCACGTCTCTG
R:
GGTGCCTGGATCTCCTCCTC
Band lengths:
167-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]