HsaINT0152527 @ hg38
Intron Retention
Gene
ENSG00000198569 | SLC34A3
Description
solute carrier family 34 member 3 [Source:HGNC Symbol;Acc:HGNC:20305]
Coordinates
chr9:137232072-137232703:+
Coord C1 exon
chr9:137232072-137232161
Coord A exon
chr9:137232162-137232574
Coord C2 exon
chr9:137232575-137232703
Length
413 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
AGCCTGCCCTGTGTCCTCAGAGC
3' ss Score
9.26
Exon sequences
Seq C1 exon
GGACCTCCAGTTCTGCTCCAGTCTTGGAGGAAGGGGACACAGACCCCTGGACCCTCCCTCAGCTGAAGGACACAAGCCAGCCCTGGAAAG
Seq A exon
GTGGGTCTGGAGGTTCCGGGGGTGGCAGGCTGGCAGGCCTCTGTCCCCAACGGGACTGGGGAGACAGAGCAGGGTGGGGCCTGCCCAAACAGGCTGTGTGTGGGGAACTCCGCCATGCAGGCCCCCTCTGGGGAGACACGTGTCCCTCAACCGGGTGTCTGTGCTGTCCTGGGGCAGACCGGCCACCTCTGCCCATCCGTCCCTCCCCTCCTGCTCCTGCGAGGGAGGGTCCCAAGGGCTTCTGGCTTGGAAAGGCAGGAACCCGGGCCCTGCCCTGGGGGTTACGGAAGAGGAGGAAATGGGACCCAGCCCTGTTGGAGACAGAGGAGAGAGGGGGCAGAGAATGAGGGGCCTGGGAGGGAGACCTGTCAGGGTGGAGGGCCAGCCAGGGACAGCCTGCCCTGTGTCCTCAG
Seq C2 exon
AGCTCCGCGTGGCCGGCAGGCTGCGCCGCGTGGCCGGCAGCGTCCTCAAGGCCTGCGGGCTCCTCGGCAGCCTGTACTTCTTCATCTGCTCTCTGGACGTCCTCAGCTCCGCCTTCCAGCTGCTGGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198569:ENST00000361134:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PU(11.6=38.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCCAGTTCTGCTCCAGT
R:
CAGCAGCTGGAAGGCGGA
Band lengths:
214-627
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