HsaINT0152531 @ hg38
Intron Retention
Gene
ENSG00000198569 | SLC34A3
Description
solute carrier family 34 member 3 [Source:HGNC Symbol;Acc:HGNC:20305]
Coordinates
chr9:137233209-137233722:+
Coord C1 exon
chr9:137233209-137233404
Coord A exon
chr9:137233405-137233632
Coord C2 exon
chr9:137233633-137233722
Length
228 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACGACCCCTCTGGCCCCCAGTTG
3' ss Score
6.65
Exon sequences
Seq C1 exon
GGCTTTCAGCGGCTCGGCGGTGCACGGGATCTTCAACTGGCTCACAGTGCTGGTCCTGCTGCCACTGGAGAGCGCCACGGCCCTGCTGGAGAGGCTAAGTGAGCTAGCCCTGGGTGCCGCCAGCCTGACACCCAGGGCGCAGGCGCCCGACATCCTCAAGGTGCTGACGAAGCCGCTCACACACCTCATCGTGCAG
Seq A exon
GTGAGGACGGCCACCGCCCCCGCCCAGAGAGCCTGAGCAGGCCGGATGGGAGGAGGGGAGGCCCGCCCTGCCCTGATGGAGGGTCAGCGGAGGGTCTGGGCCCTGTCCTGGGACAGGGGAGGAGAGGGCAGCAGTGGGCAGGGCTGGGCTGGACCCCGCGGGCGCCAGAGCCCCGGGTGAGTCCTGAGAGAGGGTGCAGCACACCGTCACGACCCCTCTGGCCCCCAG
Seq C2 exon
TTGGACTCCGACATGATCATGAGCAGTGCCACAGGCAACGCCACTAACAGCAGTCTCATTAAGCACTGGTGCGGCACCACGGGGCAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198569:ENST00000361134:7
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=PD(29.5=65.2)
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:
GGCGGTGCACGGGATCTT
R:
CACCAGTGCTTAATGAGACTGCT
Band lengths:
252-480
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains