HsaINT0119416 @ hg38
Intron Retention
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein cytoplasmic 1 like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr20:44935391-44936730:+
Coord C1 exon
chr20:44935391-44935497
Coord A exon
chr20:44935498-44936636
Coord C2 exon
chr20:44936637-44936730
Length
1139 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
GTGTCCCCGGCACCATGCAGGTC
3' ss Score
5.24
Exon sequences
Seq C1 exon
CCAACATTGGTACTCAGACCACAGGACCCAGTGGGGTAGGATGCTGTACACCAGGCCGGCCGCTCCTGCCGTGCAAATGTTCCTCAGCAGCACATAGCACCTATCGG
Seq A exon
GTAAGGCCAGCCCAGCTGCCTGCTCTTAGCCTGGGCTCCTGGCCGCCTGGCTCAGAACCTTAGCTAAGGTGTTGGGCCTTGGCTTTTTTTCTTTTCTTGGCTTGTAAAGTTTCGTTTATTAATGTGTACAATCAATAAGAGATCACCCTTACTGCGAGAAGGGGAAAGAGGGCCAGCATTACGTTTTATTTACAATTTGTTTTGCTTCGGTTATTACCAAAATTAATTTGGATATCCTTAGTATTTGTGATGAACACCAAGGAAAGGTATTCTAAGAATATGCTGATTATTGAAGGGATGTACTTAATCTTCAAAACAGAAAATACTTACTGTAATCAAAGACTGTGTATTTATCTCCCTCCCCTAAAAAAGGCCTAAAATTCAGCATTATCATATCCTGTGTAGAATTTCAATGTGTCTCTTTTGAACTATTTCCTGCAAAATGAATGAGAACAGTCTTTAAACAGCAAAAATGTCTATTTTTTTTTTTGGACAGGGTCTTTTTTTTGACAGCACCCAGGTTAGAGTGCAGTGGTGTGATCATAGCTCACTGCAGCCTTGAACTCCTAGGCTCAAGTGATCCTCCCACCTCAGCCTCCAAGTACAGGCATGTGACACCATGCCTGGTTAATTTTGTGTATTTTTTTGTAGTGACAGGGGTCTCATTATGTTGCCAAGGCTGATCTCAAACTCCTGGCCTCAAGCGATCCTCCCACTTTGGCCTTCCAAAGTTCTAGGATTATAGGTGTGAGCCACCACACCTGGCCAAAATGTTTTAAAATTACCAAGATGTGAAAGGGTGAGAGGTGTGCCGGGGACATGTCCATAAATCTACTTGATAAAAAGTGCTTTATTTGGCACAAAGTTATTGGTAACACAGGGCTTTCCTTTATCAACGTTCATCAGGGACCTTTATAAGTTCGTAGCACTACAGGAAACGTCTAAGCTAGAGGCATGACTTTGTCTTCTAATCCACTTTGCCCTTGTTGGGGACTCTCCACCCCACCTGATCATCCAGACCTTGCCCTCTGTTCCCCTCCTCCAGTGCCTCCCTGGCCTTCTGCTCACTTGCCAGGGTAAGTATTTTGAGGACATGCCTGTCCATGGTGATTAAGGGATGTGTCCCCGGCACCATGCAG
Seq C2 exon
GTCCAGGAGCCGGCTGTGCACATCCCAGGACAGGAGCCCCTGACCGCGTCCATGCTGGCTGCGGCGCCCCTGCATGAGCAAAAGCAGATGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104:ENST00000217073:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.352 A=NA C2=0.409
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0065813=PABP=PU(27.8=62.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development