HsaALTA1005260-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100715471-100717888:-
Coord C1 exon
chr8:100717773-100717888
Coord A exon
chr8:100715517-100715620
Coord C2 exon
chr8:100715471-100715516
Length
104 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
AATAGAATCTAATGTTATAGTCC
3' ss Score
2.26
Exon sequences
Seq C1 exon
GTGGTTTGTGATGAAAATGGTTCCAAGGGCTATGGATTTGTACACTTTGAGACGCAGGAAGCAGCTGAAAGAGCTATTGAAAAAATGAATGGAATGCTCCTAAATGATCGCAAAGT
Seq A exon
TCCTTGTATATCTTATTAGATTTGTTGGACGATTTAAGTCTCGTAAAGAACGAGAAGCTGAACTTGGAGCTAGGGCAAAAGAATTCACCAATGTTTACATCAAG
Seq C2 exon
AATTTTGGAGAAGACATGGATGATGAGCGCCTTAAGGATCTCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-27-21,27-20,27-18-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.002 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(2.8=5.1),PF0007617=RRM_1=PU(92.7=97.4)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTTTGTGATGAAAATGGTTCCA
R:
CAAAGAGATCCTTAAGGCGCTCA
Band lengths:
162-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains