HsaINT1026010 @ hg38
Intron Retention
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100705589-100706805:-
Coord C1 exon
chr8:100706651-100706805
Coord A exon
chr8:100705674-100706650
Coord C2 exon
chr8:100705589-100705673
Length
977 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
AGTTCTCATTTTCTGTCTAGCCT
3' ss Score
5.19
Exon sequences
Seq C1 exon
CTAACACATCAACACAGACAATGGGTCCACGTCCTGCAGCTGCAGCCGCTGCAGCTACTCCTGCTGTCCGCACCGTTCCACAGTATAAATATGCTGCAGGAGTTCGCAATCCTCAGCAACATCTTAATGCACAGCCACAAGTTACAATGCAACAG
Seq A exon
GTATGGATTTAATGATTTCTTAATAAAAATCACATTTCTTGGGTGAAATCAAAGGTGTGAAGACAGCTGGGCACAGTGGCTCACACCTATAACCCCAGCACTTTGGGAGGTTGAGGCAGGCAGATTGCTTGAGACCAGGAGTTTGGGACCAGCCTGGGCAACATACAGGACCCTGTCTCCACAAAGAAAACTAGCTGGGTGTGGTGGCATAAGCCTGTAGTCCTAGCTGCTAGGAAGGCTGAGGCAGGAGGATTGCTCGAGCCCAGGAGTTTAAGGCTGCAGCAAGCTGTAATCCCTGCTGGGTGACAGCAAGACTCTGTCTCAAAAGAAAAAATGTGAAGACAGCTGCATGATAGATTCTTGAGAGCTTAGCCTATCTGGAACATTCTGCTAATATGATAGTATGTAAAATGTCTTACGCTTTTGGAATTGGACAAGCAGCGAGAAATTCACATCCTAAATCACCACGCCTGGTCTGAAACAACTATTACAAGTAGCTATGGGCCAGGCGTGGTGGCTCACACCTCTATGTAATCCCAGCACTTCAGGAGGCCAAGGCAGGTGGATCACTTGAGGTCAGGAGTTTGAGACCAGCCTGGTCAACAGGGTGAAACCCCAGCTCTAAAAATATAAAGATTAGCCAGGCTTGGTGGCACATGCCTGTAATCCCAGCTACTGGGGAGGCTGAGGCAGGAAAGTTGCTTGAATCCGGAGGCGGAGGTTGCAGCGAGCCAAGATTGTGCCGTTGCATTCCAGCCTGGGCGACAAAGTGAGACTCCATCTCAAAAAGAAAAAAAATGTATCTGTGATACATAGTATATAATAACTACTTTGGCTTCTTTCTAATTCGCTCACTCAACTTCTCCACCTCATGTTTCGATGGAAGTCTACCACTTCAGCAGATGTCCATTGATGACTATTTGTATTTGCCATCTTTTTCTGTGCTTTAAACTTAAGAGTTCTCATTTTCTGTCTAG
Seq C2 exon
CCTGCTGTTCATGTACAAGGTCAGGAACCTTTGACTGCTTCCATGTTGGCATCTGCCCCTCCTCAAGAGCAAAAGCAAATGTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756:ENST00000318607:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.853 A=NA C2=0.835
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0065813=PABP=PU(27.8=69.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAACACATCAACACAGACAATGGG
R:
GCTTTTGCTCTTGAGGAGGGG
Band lengths:
230-1207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains