HsaINT1026020 @ hg38
Intron Retention
Gene
ENSG00000090621 | PABPC4
Description
poly(A) binding protein cytoplasmic 4 [Source:HGNC Symbol;Acc:HGNC:8557]
Coordinates
chr1:39560816-39561787:-
Coord C1 exon
chr1:39561685-39561787
Coord A exon
chr1:39561123-39561684
Coord C2 exon
chr1:39560816-39561122
Length
562 bp
Sequences
Splice sites
5' ss Seq
ACCGTATGT
5' ss Score
6.73
3' ss Seq
GTTGGTGCTTTTCTTTACAGGAT
3' ss Score
9.75
Exon sequences
Seq C1 exon
GTGGATGAAGCTGTAGCAGTTCTACAGGCTCATCATGCCAAGAAAGAAGCTGCCCAGAAGGTGGGCGCTGTTGCTGCTGCTACCTCTTAGACAAGGAAAAACC
Seq A exon
GTATGTGTGGCTATTTTCATTTTTGTTCCTATGAGCATTGTTCCTATGAGCATTGTCTTTGTGGTTTGACCTGAGGTTGTATATATGCTCACTGCTTAGCTCTGGGAATACAATAAGTACAGTTAGTTACACGGAGTGTGTTGCAGGTGACTTCTTATCATGAGGACTGTGGACTTTGTCTGCAGGAGCTTGAGTGAATAATAAAACTAGTACTGGTTGATGGTTGTAGGTGTCTCCAGATAGGGAAAGAAGAGACAGTAAAATAAGCTAAGGAAAAAGCACATGGTAAGGACCAGAGCTGGTGTGTTGGGAGGGTTGACTTGGCATAGTCATGACCCTCTTGTCAAGGGCCTCAGGAGCCTTGTCATCTAGTGGTAAAGACCAGAGATGCTGCTAAATGTTGTACAGTACACAGGAGGACAGACCCAACAGAATGTCCAAAGTGTCAATAGCACTGAGGTTGAGAAACTCTCTTCTAGAATACCTTCCTTTATCCACTATATGTTAATGAATCTAAATTATTTGATTATGCATTTATTTGTGTTGGTGCTTTTCTTTACAG
Seq C2 exon
GATTCAAAAGCCAAATAACCCCTTATGGAATTCAACTCAAGGTTTGAAGACTTCCTAGCTTGTCCTATGGACCTCAACACCAAGGATTACAAATTGCAAATTTAATAGGTCATTTTGTATCAAAAGGTCAATTATGAAGCACCTAGAATTTTTCAATTATACGAATATGTTCTTTGGGTTCTGCTGTGGCCCAGACAGTGTTAACTTTTTTTTTATTGTGGGTTTTGATTTTTTCCCCCAGAAATTGGTTTTATTTGATGTACCCAAGTCTTACGTTTCCCAATAAAGAAAAAAAATCTCCATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090621:ENST00000372857:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.455 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0065813=PABP=PD(9.7=23.3)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping 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:
AAAGAAGCTGCCCAGAAGGTG
R:
TGGGAAACGTAAGACTTGGGT
Band lengths:
343-905
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains