HsaINT0123715 @ hg38
Intron Retention
Gene
ENSG00000087157 | PGS1
Description
phosphatidylglycerophosphate synthase 1 [Source:HGNC Symbol;Acc:HGNC:30029]
Coordinates
chr17:78399348-78400855:+
Coord C1 exon
chr17:78399348-78399537
Coord A exon
chr17:78399538-78400676
Coord C2 exon
chr17:78400677-78400855
Length
1139 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TGCATCTTCCCTCCCTGTAGTGC
3' ss Score
8.97
Exon sequences
Seq C1 exon
GCCGGAAGAACTCCCGCACAATGCTGCTCCCACTCCTGCGGAGGTTCCCAGAGCAGGTCCGAGTCTCCCTCTTTCACACGCCGCACCTCCGTGGGCTGCTTCGGCTCCTCATCCCTGAGCGCTTCAACGAGACCATCGGCCTCCAGCACATTAAGGTGTACCTCTTCGACAACAGCGTCATCTTGAGCGG
Seq A exon
GTGAGTGCTTCCCACCGTCAGTGCTTTTGCCCTCCTGCTCTGCAGGCTGGAGGGCAGTGGAATAGGAACAGTGGGAAACCCGTTCCCCTCAGTCTTGGAGAACCTGCTTGTAGGTCTGGCTGCTGTGCACCCGCGGCACCTCCCCGACACTGTCTCTGCCACTGAGGCTAGAATTCCCCGGGGGCTGACTGGAAGCCACTGTTGACAGGGCACTTAGTCTGTGCTGGCCACTCAGGTATGTTGTCTGTTTCCACCCTCAGTGACCCTCTGTAGTATTTTCCTCACTGTGTACATGTGGAAACAGATCAGAGAGGATGAGTCACTTTGTCAGGTAGACAGAGCCAGAAAAATAAACAAGAGTCAGACCTGGAAGTCCAGGTCCTTAGGCTGATAAATATGGGCCCTTTCACAGGCCCTCCCCTCGGCAGTGGGGCCAGGATTGGGTTGCTGGTGCTGAGAGAAAGCCCTTGATTGCATCCTTGCTCTGGGACTGTACCAGTGGCAGCTGTCACTTAGTGGGACAGAGAGAACAAACAAACATGGGCGCTGATAAATAGCCCTGCATGGGCCGGGCGCAGTGGCTCACGCCTGTAATCCCACATTTTGGGAGGCTGAGGCAGAGGGATCACCTGACGTTAGAAGTTCAAGACCAGCCTGGACAACATGGTGAAGCCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGCACACACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGGATCACTTGAACCTGGGAGGCGGAGGCTGCAGGGAGCCAAGATCATGCCACTGCACTCCAGCCTGGGCGACAGAATGAGATTGTCTCAAAAAAAAAAAAAGCCCTGTGTGGTTAGTTGACTTTCTGTGTCTGCATCTCCTCTTCTCAGCTACACTGTCGGCTCCTTGAGAGGAGGAGGCTGTGGGTCACTTTGCTGTGTCACCTTGGATCAACTCTGGCTTTGTCTTTTGCACGTGTTCATTGCTGAGTAGCTATTTGTTAACTGCATCTTGACCTGAGTTTGTCACCCCCCTGCTAGTTCACCTGAGACCTGGGTCACCAGGACACGCTGCTGCATACCCTTGCCTGAGTCCTCCTCACCTGCATCTTCCCTCCCTGTAG
Seq C2 exon
TGCAAACCTGAGTGACTCCTACTTCACCAACCGCCAGGACCGCTACGTGTTCCTGCAGGACTGTGCGGAGATTGCCGACTTCTTCACGGAGCTGGTGGACGCGGTGGGGGATGTGTCCCTGCAGCTGCAGGGGGACGACACGGTGCAGGTGGTGGATGGGATGGTGCATCCTTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000087157:ENST00000262764:5
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:
PF130911=PLDc_2=FE(39.4=100)
A:
NA
C2:
PF130911=PLDc_2=PD(21.9=57.4)
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:
GAAGAACTCCCGCACAATGCT
R:
GATGCACCATCCCATCCACC
Band lengths:
356-1495
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