HsaINT0128610 @ hg19
Intron Retention
Gene
ENSG00000130653 | PNPLA7
Description
patatin-like phospholipase domain containing 7 [Source:HGNC Symbol;Acc:24768]
Coordinates
chr9:140373508-140374932:-
Coord C1 exon
chr9:140374764-140374932
Coord A exon
chr9:140373691-140374763
Coord C2 exon
chr9:140373508-140373690
Length
1073 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
ACGTGGGCTCTGCCTTTCAGCTG
3' ss Score
8.36
Exon sequences
Seq C1 exon
TGTTCACGAGTACCGGCTGTCCAGCTGGCTGGGGCAGCAGGAGGACACCCACAGGATCGTGCTCTACCAGGTAGATGGCACGCTCACACCCTGGACCCAGCGCTGCGTGCGCCAGGCCGACTGCATCCTCATCGTGGGCCTGGGTGACCAGGAGCCCACAGTGGGCGAG
Seq A exon
GTGAGCACGGGGAGGGCCGGTGGAGCTGGGGAGAGCCCTCTCTTCAGAACCTCCTGTTTCTCTTTTCCTTTGAGTAAAATACTGCACAAACTCAGAAAAAGACAGATGATAAGAGCCAACACTCAGATATCTGCTACCCATGTTTTAAAAACACGGTGCTGTATTGACCTCCAGGGGTTCTAGCACGGAGCAGGGCAGGTGCCCCACGTGGCCTCTTGTGAAGCCGCAGCCTCCGGCCGCCTTTCGCACTTTTACAGCAGGTGCGGGAAGCCTTTTCCAGGACTAACCTTTTACGTAAACGGTGCCCTATTTTGTGTCATCTGAAGTTTGCTTTTCTCCACAGCACTTAGGTGTCGGCGTCGTTCCTGTTCCTCTCACTGCTTTTTCTGGCTGCTTAGTTTTCCTCTTGTGAATGCCTTACCCTCTGCCTCTGCATCCTCAGCCAACAGGAACAGCCTTCTGCAGGCACCTTCGGGACGCTGGCCCCAGGCTGTGTCTGCAGGTTCCCAGATGGCAGCAGATCACTGACCTGATTGCTTCCTTCCACCTGGCCATTGCTGCAGGCGAGGCCTCGGGCTCATGGCCACCCAGTCCTGTTCGTGTTCTCCAGCTTCCTGCCTTCAGTTTGCATTTCCCGTCTCCCTCCTCTGCTCCCTGCTCTGTTCTCATCACAAGCCTGCCTGGGCTAATCCTGGGGCAGCTAAAAATTCCTCCTCTCTGATGTATGTTCCTGTTCTGCAGCTAGTGATGCTCCCTTGTGAGAGTTTGTTTGCAAAATACCTCATTTGGAAAGGTTGCTGTGTGTGTTTATGAGGCAGTGTTAGAGAAACAGAAAGAGGAGGCGTCCCCCTCCTGCCGTACTGACCTTGCCCAGCACACAGTGGACGGATGGACCCCTGCCGTCAGAGCTTCGGCAGCGCCAAGGCAGACCAGGCCACAGCCAAGTTGCTTTGCAGAACCCAGGAGCTGCTCCCGGGGTCCTGCCCTCAGACCCTCTGTGCTGGCCTTCAGCTCCGTCCTGTCCCGAGTCCCAGGCTCACCCGGCTGGCAGACACGTGGGCTCTGCCTTTCAG
Seq C2 exon
CTGGAGCGGATGCTGGAGAGCACAGCTGTGCGTGCCCAGAAGCAGCTGATCCTGCTGCACAGGGAGGAGGGCCCGGCGCCAGCGCGCACCGTGGAGTGGCTCAACATGCGGAGCTGGTGCTCCGGCCACCTGCACCTCTGCTGCCCGCGCCGCGTCTTCTCCAGGAGGAGCCTGCCCAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130653-PNPLA7:NM_152286:22
Average complexity
IR-S
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:
NO
A:
NA
C2:
NO
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:
GTTCACGAGTACCGGCTGTC
R:
AGCTTGGGCAGGCTCCTC
Band lengths:
350-1423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)