HsaINT1026012 @ hg38
Intron Retention
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100702916-100704390:-
Coord C1 exon
chr8:100704297-100704390
Coord A exon
chr8:100703360-100704296
Coord C2 exon
chr8:100702916-100703359
Length
937 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
TGTTTTTTTAACATTTACAGATT
3' ss Score
8.78
Exon sequences
Seq C1 exon
GTTGATGAAGCTGTAGCTGTACTACAAGCCCACCAAGCTAAAGAGGCTGCCCAGAAAGCAGTTAACAGTGCCACCGGTGTTCCAACTGTTTAAA
Seq A exon
GTGAGCTTTTCCCTCTGGTTTGTTGTTTTAAGCTTGTTTTCTTCATCTTTTATAAAGTTTGTTGAGCATATTTTGAAATGTACATAGCAAAAGATCATTTTACAGTTCATTTAAATGTATTGCTAATTTTTCAAGGAAAAGTGGAACTAACTATAGAGGAATTAAAGGAATTTTACCCGTTAACTGTTGGATTTTTAAAATCCCAGGACTTTCAGGTGGTGTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGTTCTGTCGCCCAACCTGGAGTGCATTGACGCGATCTCGGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCCTGCCTCGGCCTCCCGAGCAGCTGGGATTAACAGGCCCATGCCTGCCACCGTGCCCAGCTAATTTTTGTATTTTTACTAGACTTGGGGTTTTGCCATGTTGGCCAGGCTGGTCTGGAACTTCTGACCTCAAGTGATCCGCCCACCTCGGCCTCCCAAAGTCTTGAAATTACAGGCGTGAGCCACTGCGCCCTGCCAGATTTTGTATAGTAATATATATATAAAATGACCTGTCACAGGTTGGCTTTCATAGTTTTACCTTTCCTTTTTGGGTGGTGCCCTTGGGTCTCTACTACTGTCTTTCATCACTCCCAAGAAATTGAGTAGTGCAGCCAGGATCAGGACCAGGGATTGGCAAATGTTTTTTGTAAAGGGCCAGATAGGAAATATTTTGGGCTTTGAGGACTGTGTTATCTCTGAAATGATCTTGTTCCAGTGTTACCATGTCAAGACAACCATAGATAGTATGTATACAAATGAACAGGTATGGCTGTGTTCCAGTAAAACTATGGATAAAAACAACCACATTGCATTTGGCTAAGGGCTTTAATTTGCTACTGACAAGTGATAGTCCTGGTCTTAATTTGTTTTTTTAACATTTACAG
Seq C2 exon
ATTGATCAGGGACCATGAAAAGAAACTTGTGCTTCACCGAAGAAAAATATCTAAACATCGAAAAACTTAAATATTATGGAAAAAAAACATTGCAAAATATAAAATAAATAAAAAAAGGAAAGGAAACTTTGAACCTTATGTACCGAGCAAATGCCAGGTCTAGCAAACATAATGCTAGTCCTAGATTACTTATTGATTTAAAAACAAAAAAACACAAAAAAATAGTAAAATATAAAAACAAATTAATGTTTTATAGACCCTGGGAAAAAGAATTTTCAGCAAAGTACAAAAATTTAAAGCATTCCTTTCTTTAATTTTGTAATTCTTTACTGTGGAATAGCTCAGAATGTCAGTTCTGTTTTAAGTAACAGAATTGATAACTGAGCAAGGAAACGTAATTTGGATTATAAAATTCTTGCTTTAATAAAAATTCCTTAAACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756:ENST00000318607:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.722 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0065813=PABP=PD(11.1=22.6)
A:
NA
C2:
NA
Main Skipping Isoform:
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:
CCCACCAAGCTAAAGAGGCTG
R:
GCTGAAAATTCTTTTTCCCAGGGT
Band lengths:
346-1283
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains