HsaEX0045147 @ hg38
Exon Skipping
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein cytoplasmic 1 like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr20:44938061-44959035:+
Coord C1 exon
chr20:44938061-44938191
Coord A exon
chr20:44938674-44938748
Coord C2 exon
chr20:44958337-44959035
Length
75 bp
Sequences
Splice sites
3' ss Seq
CCGCCACTCATGTCTCACAGATA
3' ss Score
8.33
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
Exon sequences
Seq C1 exon
GGGAGCGTCTCTACCCCCTTATCCATGATGTCCACACCCAGCTGGCTGGCAAGATCACGGGCATGCTGCTGGAGATTGACAACTCAGAGCTGTTGCTCATGCTGGAGTCTCCAGAATCCCTCCATGCCAAG
Seq A exon
ATAGACGAGGCAGTGGCCGTGCTGCAGGCACACCAGGCTATGGAGCAGCCGAAGGCGTACATGCACTGAAACCAG
Seq C2 exon
GCCCAGAGACGGAAAGTACAAAGACTAGTAAAATACATCCTTGCCCTTAAGGAGCTAAGTACCCAAAACCTGTAATCCATCTTGAGTCACCAGAGTACGGTTGCTCAGAAACAGCAGTGGTGCGGTGGAAAGGGCATCAACCCTGCGATCCGGACAAGTCACTCCATCCCTCTGATCATGCGTGCCCACCTACCACATGAGGATATCACTTCATAGACTTGCTGGAAGGGTTCATTGTGTTAGCCTGTTCCCTGAGCTCTCTTCGTGATCAAGAAGACTGATCAGATAAATCAAGAGACTTGCCCAAAATTACCTAGGAAATCTGTAGCAGCAGCAGAACCAAACTCCGGTCCTTGCTAAATCTAGATACCAGGCTAGCTTTTCTATGGACCCAGAATTAACCCATACAAATGTACAAGCTTTTCCAGACCAGCTGGGGTGAGATGAATGAAAATGGCAGCAACATCAATACCTCAGCTTCTTCAGCAACTTCATCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104_MULTIEX2-4/8=3-C2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. Stop)
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.180 C2=0.000
Domain overlap (PFAM):
C1:
PF0065813=PABP=FE(59.7=100)
A:
PF0065813=PABP=PD(9.7=30.4)
C2:
PF0065813=PABP=PD(5.9=15.4)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATGCTGCTGGAGATTGACA
R:
TGAGCAACCGTACTCTGGTGA
Band lengths:
178-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development