HsaEX0045222 @ hg19
Exon Skipping
Gene
ENSG00000006712 | PAF1
Description
Paf1, RNA polymerase II associated factor, homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:25459]
Coordinates
chr19:39879402-39879838:-
Coord C1 exon
chr19:39879733-39879838
Coord A exon
chr19:39879587-39879655
Coord C2 exon
chr19:39879402-39879505
Length
69 bp
Sequences
Splice sites
3' ss Seq
CCTTGTTTTTGTTCCACCAGATC
3' ss Score
10.3
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
Exon sequences
Seq C1 exon
GATTGGGGTTTCTGTGAAGCAGCAGTTTACCGAGGAAGAAATATACAAAGACAGGGATAGCCAGATCACAGCCATTGAGAAGACTTTTGAGGATGCCCAGAAATCA
Seq A exon
ATCTCACAGCATTACAGCAAACCCCGAGTCACACCGGTGGAGGTCATGCCTGTCTTCCCAGACTTTAAG
Seq C2 exon
ATGTGGATCAATCCATGTGCTCAGGTGATCTTTGACTCAGACCCAGCCCCCAAGGACACGAGTGGTGCAGCTGCGTTGGAGATGATGTCTCAGGCCATGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000006712-'6-7,'6-6,7-7
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=0.239 C2=0.133
Domain overlap (PFAM):
C1:
PF039858=Paf1=FE(21.3=100),PF039858=Paf1=PU(0.5=2.8)
A:
PF039858=Paf1=FE(5.2=100)
C2:
PF039858=Paf1=PD(0.1=0.0),PF039858=Paf1=FE(18.5=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGCAGCAGTTTACCGAGG
R:
ACATCATCTCCAACGCAGCTG
Band lengths:
180-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)