HsaALTD0004534-3/5 @ hg38
Alternative 5'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100717773-100718280:-
Coord C1 exon
chr8:100718231-100718280
Coord A exon
chr8:100718183-100718230
Coord C2 exon
chr8:100717773-100717888
Length
48 bp
Sequences
Splice sites
5' ss Seq
GGAGTAGGC
5' ss Score
0.41
3' ss Seq
GGGTATATGTTTTTCCCTAGGTG
3' ss Score
10.19
Exon sequences
Seq C1 exon
CGGAGCGTGCTTTGGACACCATGAATTTTGATGTTATAAAGGGCAAGCCA
Seq A exon
GTACGCATCATGTGGTCTCAGCGTGATCCATCACTTCGCAAAAGTGGA
Seq C2 exon
GTGGTTTGTGATGAAAATGGTTCCAAGGGCTATGGATTTGTACACTTTGAGACGCAGGAAGCAGCTGAAAGAGCTATTGAAAAAATGAATGGAATGCTCCTAAATGATCGCAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-18-17,19-17,20-17,22-17,24-17-3/5
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.002
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(23.9=100),PF0007617=RRM_1=PU(0.1=0.0)
A:
NA
C2:
PF0007617=RRM_1=PD(2.8=5.1),PF0007617=RRM_1=PU(92.7=97.4)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGTTATAAAGGGCAAGCCA
R:
TGCGATCATTTAGGAGCATTCCA
Band lengths:
134-182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains