HsaINT0119413 @ hg19
Intron Retention
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein, cytoplasmic 1 [Source:HGNC Symbol;Acc:8554]
Coordinates
chr8:101719115-101721451:-
Coord C1 exon
chr8:101721361-101721451
Coord A exon
chr8:101719226-101721360
Coord C2 exon
chr8:101719115-101719225
Length
2135 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
TTCACATCTTTAAAATGCAGCAT
3' ss Score
5.55
Exon sequences
Seq C1 exon
ACTCAGAACCGTGCTGCATACTATCCTCCTAGCCAAATTGCTCAACTAAGACCAAGTCCTCGCTGGACTGCTCAGGGTGCCAGACCTCATC
Seq A exon
GTAAGTCTTTTTTCTTTTAATTAAGGTTGGGGATTGAGTTAAAAATAACACATTGGGTAAATCAGCTCTTCTATGTCAATGTTAGGTTAACTATTGCATTTCACATAATTTGTGGTTATGGATGTTCATTTTTATAGCATTTAAAAGCAGTGCTAAGATAGTAATGTCTACAGTGGTTTGATTTCCCTTTATAAAAGTTTTGGGAATAGGTACAGCTCTTCATTTTTTATTTATTTATTTATTTATTTATTTTCGAGACAGAGTCTCGCTCTGTTGCCCCAGGCTCGAGTGCAGTGGCTCAGTTTCGGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCGATTTCTCCCTGCCTCAGCCTCTGGAGTAGCTGGGATTACAGGTGCCCGCCACCACGCCCAGCTAACTTACGCATTATTAGTAGAGATGGGGTTTGACCACGTTGGCCAGGGTTGTCTTGAGCTCCTGATCTCAGGTCATCTGCCCACCTCAGCCTCCTAAAGTGTTGAGAGTACAGGCGTGAGCCATGGCACCCAGCCAATTTCATATTTTGTCAGGCCACAGTTTTAAAGGTCTCGTTCCATTTAATCATGTATGAGAATCAGAGTCGTGGTATTTTATGTCTTGTCCTGTGGAACAGTATGTTATATTCCAAGAGCACTTAGAGTTTATTTTTTTAGACAGAGTCTCACTCTTTCTTCTAGTCTGGAGTGCAGTGGCATGGTCTTGGCTTACTGCAGCTTTCACCTCCCGGGTTCAGGTGATCCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCACACGCCACCACGCCCAGCTAATTTTTTAAATTTTTTGTAGAGACGGGATTTTGCCCTGTTGGCCAGGCTGGGAGCACTTAGAATTTTATCATGATTATGTTTCAGGTATATTTATAAGTGTGGGCGGCAAACCACCCAGGTGCCAAGGCAAGAGACCGAGGACACGAGCTGTTCCAATATAATAAAATATAAAATAAGAATAGTTATACCAGATATAGATCTTAGATATGATTATATATGAATATCATTAATCATTAGTTTGTAGCAATTACTCTTTATTCCAATATCATAATAATCCTCACTCTATAATCATAACCTAGGAAAAACCAGGCCATACAGAGATAGGAGCTGAGGGGACATAGTGAGAAGTGACCAGAAGACAAGAGTGCGAGCCTTCTGTTATGCCCAGACAGGGCCACCAAAGGGCTCCTTGGTCTAGTGGTAACGCCAGCGTCTGGGAAGACGCCCGTTGCCAGGCGGACCGAGGTCTAGCAGTAGCGTAAGTGTCAAAGGAAAACACCCACTATTTAGCAGACCGGGAAAGGGAGTCTGCTTTTCCCCTGGGGAGTTTAGAGAAGACTGCTCCTCCACCTCTTGTGGAGGGCCTGACATCAGTCAGGCTTGCCTGCAATTATCCAGAGGCCTAACCGTCTCCCTATGGTGCTGTGCTTCAGTGGTCACGCTCCTAGTCTGCCTTCATGTTCCATCCTGTACACCTGGCTCTGCCTTCTAGATAGCAGTAGTAAATTAGTGAAAGTACTAAAAGTCTCTAATATGCAGAAACAATGGCGTAAGCTGTCTTTCTCTCTGTCTCCTCTCCCTCTCTGCCTCGGCTGCCAGGCGGGGAAGGGCCCCCTCTCCAGTGGACACGTAACCCACGTGACCTTACCTATCATTGGAGATGACTCACACTCTTTACCCTGCCCCTTGTGTTTTGTTTCCAATAAATAACAGTGCAGCCAGACATTCAGGGCCACTACTGGTCTCCGCGTCTTGGTGGTAGTGGTCCCCCGTGCCCAGCTGTCTTTTTTTTTTAAATCTCTGTGTCTCGTGTCTTTATTTCTGCACTCTCTCGTCGCTGCATACAGGGAGAAGCCCACCGACCCTGTGGGGCTGGTCGCTACATATAAGTACTCGTCCTTGTATGAATTAATGTTTTTACTTATTGATGCTCTGAGTCTGGGAAAATGGCAAGTGTTAAGACTCAGCTTTAAAAAGTTTTGTCACTTTTTAGTCTTTTATGCAAACCTCAGATCGAAGAAGACAGCATAAACACTTTTCACTCAGTAAGTTTTCCCAGTTAATGTATATTCACATCTTTAAAATGCAG
Seq C2 exon
CATTCCAAAATATGCCCGGTGCTATCCGCCCAGCTGCTCCTAGACCACCATTTAGTACTATGAGACCAGCTTCTTCACAGGTTCCACGAGTCATGTCAACACAGCGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-PABPC1:NM_002568:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.657 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)