HsaINT0152523 @ hg38
Intron Retention
Gene
ENSG00000198569 | SLC34A3
Description
solute carrier family 34 member 3 [Source:HGNC Symbol;Acc:HGNC:20305]
Coordinates
chr9:137234109-137234532:+
Coord C1 exon
chr9:137234109-137234276
Coord A exon
chr9:137234277-137234415
Coord C2 exon
chr9:137234416-137234532
Length
139 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
TGACCCGGCATCCCCCACAGACT
3' ss Score
8.66
Exon sequences
Seq C1 exon
GCCGCCACCTGTTTGCGGGCACGGAGCTCACGGACCTGGCCGTGGGCTGCATCCTGCTGGCCGGCTCCCTGCTGGTGCTCTGCGGCTGCCTGGTCCTCATAGTCAAGCTGCTCAACTCTGTGCTGCGCGGCCGCGTGGCCCAGGTCGTGAGGACAGTCATCAATGCGG
Seq A exon
GTGAGGGCGTGGGAGGAGGTGCGGTGGCCAGGGCTGACCCAGCATCCCCCATAGACTTCCCCTTCCCACCAGGCTGACTCGGGGGCTACCTGGCCCTCCTTGTGGGCGCTGGCCAGGGCTGACCCGGCATCCCCCACAG
Seq C2 exon
ACTTCCCCTTCCCGCTGGGCTGGCTCGGCGGCTACCTGGCCGTCCTCGCGGGCGCCGGCCTGACCTTCGCACTGCAGAGCAGCAGCGTCTTCACGGCGGCCGTCGTGCCCCTCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198569:ENST00000361134:10
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:
PF0269010=Na_Pi_cotrans=PU(19.3=47.4)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(27.9=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:
CCACCTGTTTGCGGGCAC
R:
CTCTGCAGTGCGAAGGTCAG
Band lengths:
243-382
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