HsaALTA0006024-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein cytoplasmic 1 like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr20:44924161-44930726:+
Coord C1 exon
chr20:44924161-44924256
Coord A exon
chr20:44930460-44930520
Coord C2 exon
chr20:44930521-44930726
Length
61 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTGTCTTGTCTTGCTTTTAGGTG
3' ss Score
11.3
Exon sequences
Seq C1 exon
GGTGTGAACTTGTATGTGAAGAATCTGGACGACTCCATTGATGACGACAAACTGAGGAAAGAGTTCTCTCCCTATGGAGTAATTACCAGTGCGAAG
Seq A exon
GTGATGACAGAGGGTGGCCACAGCAAGGGGTTTGGCTTTGTGTGTTTTTCCTCCCCAGAAG
Seq C2 exon
AGGCGACAAAGGCCGTGACAGAGATGAACGGGCGCATCGTGGGCACCAAGCCACTCTACGTGGCACTGGCCCAGCGCAAAGAGGAGCGGAAGGCCATCTTGACCAACCAGTACATGCAGCGCCTCTCCACCATGCGGACCCTGAGCAACCCCCTCCTGGGCTCCTTTCAGCAGCCCTCCAGCTACTTCCTGCCTGCCATGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104-17-22,17-21,17-20-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.186
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(40.6=87.5)
A:
NA
C2:
PF0007617=RRM_1=PD(11.8=57.1)
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:
TGGACGACTCCATTGATGACG
R:
CACGTAGAGTGGCTTGGTGC
Band lengths:
133-194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains