HsaALTA1005267-5/5 @ hg38
Alternative 3'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100709546-100710842:-
Coord C1 exon
chr8:100710742-100710842
Coord A exon
chr8:100709590-100709731
Coord C2 exon
chr8:100709546-100709589
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAAGTGCTA
5' ss Score
-7.37
3' ss Seq
TTTTTTCTTTTTTTTAATAGGTT
3' ss Score
11.17
Exon sequences
Seq C1 exon
GCTAATTTTTGTATTTTTAGTAAAGACGGGGTTTCGCCACGTTGGCCAGGCTGGTCTCGAACTCCTGACTTCAGGTGATCCACCCGCCTTGGCCTCCCAAA
Seq A exon
GTTATGATGGAGGGTGGTCGCAGCAAAGGGTTTGGTTTTGTATGTTTCTCCTCCCCAGAAGAAGCCACTAAAGCAGTTACAGAAATGAACGGTAGAATTGTGGCCACAAAGCCATTGTATGTAGCTTTAGCTCAGCGCAAAG
Seq C2 exon
AAGAGCGCCAGGCTCACCTCACTAACCAGTATATGCAGAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-58-40,58-38,58-37,58-36,58-34-5/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.256
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PD(19.4=63.6)
Other Inclusion Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTATTTTTAGTAAAGACGGGGTT
R:
CATTCTCTGCATATACTGGTTAGTGA
Band lengths:
138-280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains