HsaINT0152507 @ hg38
Intron Retention
Gene
ENSG00000131183 | SLC34A1
Description
solute carrier family 34 member 1 [Source:HGNC Symbol;Acc:HGNC:11019]
Coordinates
chr5:177393694-177394195:+
Coord C1 exon
chr5:177393694-177393763
Coord A exon
chr5:177393764-177394027
Coord C2 exon
chr5:177394028-177394195
Length
264 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
AGGAGCTCCACCCCCTGCAGGCA
3' ss Score
4.99
Exon sequences
Seq C1 exon
GCTCCCACCTCCATGTCCAGAGCAGAGGCCAACTCCAGCCAGACCCTTGGAAATGCCACCATGGAGAAAT
Seq A exon
GTAAGTGCCTGCAACATGGGAGGTGTCCTGCATGGCAGGGGCAGAGCCTAGCAGTGGCAGGGCAATCCCACACAGCCACTATTGTGTCCAGCCCCAGGAAGCATGGCTGTCAACTAGCCCAGCTCCTGAGCCTGGGTCAAGCTCCGGTGTTGAGGCTCAAGGAGCCTGAGATGGGGCCTTAGGATCAGAGCCCAACTGGGTGGCAAAGGTGGGGACCTGGGAGCCAGGTGTGGGGTCAGCTGTCAGGAGCTCCACCCCCTGCAG
Seq C2 exon
GCAACCACATCTTTGTGGACACTGGCCTACCGGACCTGGCTGTGGGGCTCATCCTGCTGGCAGGATCCCTGGTGCTGCTGTGCACCTGCCTCATCCTCCTAGTCAAGATGCTCAACTCCCTGCTCAAGGGCCAAGTGGCCAAGGTCATCCAGAAGGTCATCAATACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000131183:ENST00000324417:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PU(19.1=47.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCACCTCCATGTCCAGAG
R:
CCGTATTGATGACCTTCTGGATGA
Band lengths:
237-501
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