HsaINT1047955 @ hg38
Intron Retention
Gene
ENSG00000032444 | PNPLA6
Description
patatin like phospholipase domain containing 6 [Source:HGNC Symbol;Acc:HGNC:16268]
Coordinates
chr19:7534004-7534902:+
Coord C1 exon
chr19:7534004-7534239
Coord A exon
chr19:7534240-7534749
Coord C2 exon
chr19:7534750-7534902
Length
510 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TCTCTGGTTACGCCTCCCAGCAA
3' ss Score
2.88
Exon sequences
Seq C1 exon
TTTTTAGCGGGAGGAGCAGTCCTTGCGTTAAGCGGTGTGAGGCCCTTTAAGGCGCGGCCACACTCAGCATGGCGGCCTCAGTCGGCCTTCCAAGCATGGCGCGGGGAGGAGGGGTGGGAGGGTCGGGAGGGACTGCGGTGCGACTAGGAGTGAATAATTTAAAGGGGCCGTGCCTGCGGAGCCGGGCGGAACGCTAGCGGTGTTGGCGCGGAGTGGACCCCGGCTGCGGCCCCTGG
Seq A exon
GTGAGTCTGGGTTTCCGTTAGCCTCGCAGGGGTGTCCCTTCGAGGGTCGTTAGCGAGCCTCCGCTTTCCCACGATCTGTCCTCCGATTCCTGTTAACTCTAGACTTTCTGATGTTCCCATACCCCCCACGTCTCGGCAGGTGTTTCCACACCGGTAGCCAGCTGTGCCCTGAGGTGGAAGAGGACCGGCCACCCAGGAATTTTCCAAGTAACGACTCGGAGTCTCCGGGATTCCTATCTCCCGGCCCCCGAATTTCCATTAATATTCTAGCGATGTCAGAAACATCCTCAGCTTCCCAGAAAAATCCCAGTAATATTCCAGCATCTCTCAGTATCTTCCAAGGAGCCCGGACGCCCTCCCCAGGCCCGCTCTCATAAGCACCCCAGGAATGTGCCCACCCACCTCCTGGTTTTCCCAGCAGTAGTATTGTAATCCTCAGAATCTCAGTAACTTTCCAGTGACCCCGCATCCCCACCCACTAATCCCAGCGTCTCTGGTTACGCCTCCCAG
Seq C2 exon
CAATGGCGCCACCATCGGTCCCGGAGTCCCAGTGATGCTCTGTGCCATAGAGCCCCCATAACTTCACTACTACGTGATAGTAAATCCCCGGCAAAAACCAGCAGCGCCTTGCAAGCCCACGCCACCCCAAGCATCCCAGGACTCTTCTGAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000032444:ENST00000221249:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAGCGGTGTGAGGCCCTTTA
R:
GAAGAGTCCTGGGATGCTTGG
Band lengths:
355-865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains