HsaINT0119420 @ hg38
Intron Retention
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein cytoplasmic 1 like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr20:44912660-44916871:+
Coord C1 exon
chr20:44912660-44912853
Coord A exon
chr20:44912854-44916755
Coord C2 exon
chr20:44916756-44916871
Length
3902 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
CCTTCCTCCCTGTGGCCCAGGTG
3' ss Score
7.56
Exon sequences
Seq C1 exon
CGGAGCGGGCACTGGACACAATGAACTTTGAGATGCTCAAAGGCCAGCCTATTCGCATCATGTGGTCCCAGCGAGACCCAGGACTTCGCAAGTCAGGTGTGGGCAACATCTTCATCAAGAACCTGGAGGACTCCATTGACAACAAGGCTTTATATGATACCTTCTCCACCTTTGGGAACATCCTCTCTTGCAAG
Seq A exon
GTAGAGGATGAAGGGTGTACGTCTTTGGGTAGATCGGTGTCAACTACCTGCCTGGTAGAGGGGTGACAAGCAACACCTCACTTTACAGTTTACAAGGTCCTTTCAGTCAAGTTTCAGGTACAGCAAGCACCTGAATGACAGCCGTTCTTTCAGTTTCATCTTCCGTGAATGACCAGACATTACCTGTGTATCAGTCAGCTCTCGCTGTGTAACCACCTTCAAATTTAGTGGCCGTCAACAACAATCATTTATTTAGCTAATAATTCCACAGTTGGCAATGGGCAAAGTTCAGCTGGGCAGTTCTTCTGGTCTTGGCTGGGTTCCCTCCTATGCCCACTGAAAGCTGAGTGGGAGCTCTCGCTGGGTATATGAGGGAGCGACTGGCTGTCAGCTGGAACATCTTGGCTTTCCTCCCTATGGCCTTTTGTCCTCCAGTAGGCTAGTCCAGGCTATTCTCATGGTATTCTCATGGCAATGGCAGGGGCTCAGAAGACAAGAGTGGAAGCACACCAGGCCTCTTGAGAACTAAATGCAGAACTGGAACCATCACTTCCACTACGTTTTTTTTTTTTAATTGAGATGCAGTCTTACTCTGTTGCCTAGGCTGGAGTACAGTGGCATGATCTCAGCTTACTGCAACTTCCTGGGTTCAAGCCTCCTGAGTTCAAACGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGAATTACAGGTGCGAGCCACCATGCCTGGATAATTTTTGTATGTTTAGTGGAGACAGGGTGGGTTTCACTGTGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCCCAAAATGCTGGGATTACAGCCATGAGCCACCGCACCTGGCCTCTTTCACTACATTCTATTGACCAAAGCAAGTCACAAGACCAGCCCACATTCAGAGTGAGAGGGGAGTAGAAATTATAGGATGAAGGGTGTGGCTACAGGAAGGCCATTAATTGGGGCCATCAAGGCAATTAAGTTATTGAATCTTGTTTTTAAGATTGTCTTACATTAGATGTAAGTTCCATCAGTGATCTTGTTCTTAGTCATTATTGTATCCCAATACTTAGAATAAGATGTGAAACATATTAGGTGCTCAATAAATATATGTTGAGCCAGTGGAGGTATGTCATTTGAGAAGGATTCTGATTATTTCTCTGACTTTTTATATGAGGATGTTGAGGATCAGCGGCCATATAGCAGGTCAGTATGTCTGGAACAGAGGGCTTAAACCTGGGTGTTCTGTCTCTAGATTTTATAAGGATAGTTGATCAGTTACCCCGTAGCCTTTGGAGTGTCTGCTATTCTAGGGAGGATGGGGACAGTTTTTGTAGCCTATGTGTCAGAACTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTTGCCCAGGCTGGAGTGCAGTGGCGCGATCTCAGCTCACTGCAACCTCCTCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCGCCACCACGCCCAGCTAATTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTTGTGATCCGCCCGCCTCAGTCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGCACCTGGCATGTCAGAACTTTTATCAAGTGCTACTGTGTGCCAAGCATAATCCTTAAGTTCTCAACGAGGGCTCTCAAATTCCCAGTCAATAAGAGGCTATCCCTGTGGCTCAGAGGAGCAGGTAGACTTGAGGAGATGTAGTAATGCACTAAGGGTTATCTGTGACAGAGAGACGGGGCTGTTTCCTGTCTTTGAGGATCAAAGGAAGAAAGACTCTTAACTGTGTATTAAGTTCTTCACAATAATAATGGCAGATTTATCATGTACTTTCTGTGTGTTAGGTTTTCTGCATACATGTATACTCCTTAAAAGGGTACCTGGCATACTGTTAAGCTTCTAAGTGATAACTGTAACAATCAAAGAATTACTTCTGTTGGCTGACCTTGGACAAGTCATTTATTCTCATTTTCCCTCTGGGGCTCAGAGGTTAAGAAATGACTGAAAGGATTCTCTTATGACTGGCATAGATAACAAGGGAAGTATGTAATGCCCTTAGCAGGTTCTTGACCCACAGTGGGGACCCAGTCAACGTGGTTAAATCCAAGCTGAGGCTTGAGTTGAAAGTGGAAGGCCCCTGTTTCAGGATGAGAGGTGGAGGGGTATGTGCAAGGCATGGGTTTGGAAGCAAGATCTGTTGTGCAACACCCACTGGGGAGCCTCAAATGCCAAGTTGATATAGTTCTGTGGATAGAAGCTACTAGAGATTGAAGGGATGTGGTCAGAATTACATTTTAGAAAGAGCATCACAGTGGTAGTGTGCAAGCTAGGCTGGGAGGCAGTGCTTGTCATCCAGGCAGAAAATGCCACTAGCTGAGCTGAGCCTGTAGCCACAGGGATGAGTGGAGCCACAGTCACCTTGAAGTGGGGGGTTAGTGGTCTTTCTGCGAGTTCAACAAGAGGGATGGGGGCTATGTGAACTAGAAGGTCTTTCCTTGTTCTCAAGTTCTGTCCTGCTGGCCTGAGTCAGGAGGGTTACAGAATGGGAATAGGATATTGTGCATCTTTAAAAAAATTGAGGCGGGGTGCAGTGGCTCATGCTCCTAATCCCAGCACTTTGGGAGGCCCAGGTGGGTGGATCACCTGAGGTCAGGAGTCCAGGACCAGCCTAGCCAACATGGTGAAACTCCATCTCTACTAAAAATACAAAAAACTAGCCAGGCATGGTGGCATGCACCTGTAATCTCAGCTACTCGGGAGTCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGCGGGGGTTGCAGGGAGCCAAGATTGTGCCATTGCACTCCAGCCTGGGCAACAAGAGTGAAACTCTATCTCAAAAAAAAAAAAAAAAAAAATTGAAATGAGTCTGTTGTTGCAGTAATTCATGTATTGGCAAAGTTTAAACAATGTGGAAGGGAAGAAAGTGAAAAACAAGACTCCATTTCTTTCAGCCCTAGTCCCCAAAAGTAATATGAATACATTTTATGTGTCTTTTTCAAAATTTCCAATGTGTAGATGCCTACTTTAGCCTGAATGGATTTTTTTTTTCACTTAACAAGACTGTCAGGCCATGTAACCTACCACATTCTCTTCAACTGTGCACATACAGTAGACTGGTGTACAATTGAGGCTCCCCCTTGATGAATACCCCGGTTGTTTCTAGTTTGCTGATAGAAACAAGGATGCAGATATGGGGGTTTGAATCTAACCCTTTTGCCCATTGCCTTAGGAAGACAATTAAAAGCCAGTATGCAGTATAGATGAAACCTGTGTTCATTTCGTTCTCCCTCTTAAATCTGTTTTTTCTTTTCTGTTTTTATTTTTTTGACACAGAGTCTCACTCTGTCACCCAGGATGGAGTTCAGTGGTGCAATATCAGCTCACCGCAACCTCCGCCTCCTCGGTTCAAGCAATTCCCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGCACCCACCACCACATCTGGCTAATTTTTTGTATTTTTAATAGAGACAGGGTTGCACCATGTTGTCCAGGCTGGTCTCGAACTCCTGACCTCAAGTGATATGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTGCACCCAGCCTTCCTTAATCCGTTAACTTGAGTGGTGACACTCTTTGAGCTTCCATACCCCATCCCTAACATGCAGGATTGCCTTTTCCAGGCACAGCAGGCATGCAGAGACTGGTCGTGATCACCTTTGCCATTCCTTTCTACCTGAACCCTCTGTCAGTACTCTTCCTGTCCTTCCTCCCTGTGGCCCAG
Seq C2 exon
GTGGCGTGTGACGAGCATGGCTCCCGGGGTTTCGGCTTTGTCCATTTTGAGACCCATGAGGCCGCACAGCAGGCCATCAACACCATGAATGGGATGCTGCTGAATGACCGCAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104:ENST00000217073:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
A:
NA
C2:
PF0007617=RRM_1=FE(55.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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