HsaINT0152502 @ hg38
Intron Retention
Gene
ENSG00000131183 | SLC34A1
Description
solute carrier family 34 member 1 [Source:HGNC Symbol;Acc:HGNC:11019]
Coordinates
chr5:177386221-177386566:+
Coord C1 exon
chr5:177386221-177386349
Coord A exon
chr5:177386350-177386422
Coord C2 exon
chr5:177386423-177386566
Length
73 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CGCTGGCTCATGCTCCCCAGGGA
3' ss Score
6.71
Exon sequences
Seq C1 exon
AGTCCAGGCTGGTCCCCAAGCTGCGCCAGGCTGGCGCCATGCTGCTCAAGGTGCCACTGATGCTCACCTTCCTCTACCTCTTCGTCTGCTCCCTGGACATGCTCAGCTCGGCCTTCCAGCTGGCTGGAG
Seq A exon
GTAGGGCCCGGGTGGAGGAGACCTGGGAGGGGTTCCTGAAGGGCCTTGGACAACGCTGGCTCATGCTCCCCAG
Seq C2 exon
GGAAGGTGGCTGGTGACATCTTCAAGGATAACGCCATCCTGTCCAACCCGGTGGCCGGGCTGGTGGTGGGGATCCTGGTGACCGTGCTGGTGCAGAGCTCCAGCACCTCCACATCCATCATCGTCAGCATGGTCTCCTCTGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000131183:ENST00000324417:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0269010=Na_Pi_cotrans=PU(11.8=38.6)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(33.3=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:
TACCTCTTCGTCTGCTCCCTG
R:
CGATGATGGATGTGGAGGTGC
Band lengths:
178-251
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