HsaINT1042000 @ hg38
Intron Retention
Gene
ENSG00000198569 | SLC34A3
Description
solute carrier family 34 member 3 [Source:HGNC Symbol;Acc:HGNC:20305]
Coordinates
chr9:137233863-137234276:+
Coord C1 exon
chr9:137233863-137233941
Coord A exon
chr9:137233942-137234108
Coord C2 exon
chr9:137234109-137234276
Length
167 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGG
5' ss Score
3.69
3' ss Seq
TGCCCCTGCCCTGCCCCCAGGCC
3' ss Score
11.24
Exon sequences
Seq C1 exon
ACCCAGGAGAACAGCAGCTGTGGCGCCTTCGGCCCGTGCACAGAGAAGAACAGCACAGCCCCGGCGGACAGGCTGCCCT
Seq A exon
GTGAGGCCCGGCCCACCCCAAGCCCCCTACACCCCCCACACTCCCCCTCACCGGCCCCTACATGGAGAGGAACAGCACAGCCCCGGCGGACAGGCTGCCCTGTGAGGCCCGGCCCACCCCGGCCCACCCCCCAGGCTCCCCCTCACCTGCCCCTGCCCTGCCCCCAG
Seq C2 exon
GCCGCCACCTGTTTGCGGGCACGGAGCTCACGGACCTGGCCGTGGGCTGCATCCTGCTGGCCGGCTCCCTGCTGGTGCTCTGCGGCTGCCTGGTCCTCATAGTCAAGCTGCTCAACTCTGTGCTGCGCGGCCGCGTGGCCCAGGTCGTGAGGACAGTCATCAATGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198569:ENST00000361134:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PU(19.3=47.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGAGAACAGCAGCTGTGG
R:
CCGCATTGATGACTGTCCTCA
Band lengths:
244-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains