HsaINT0152829 @ hg38
Intron Retention
Gene
ENSG00000169507 | SLC38A11
Description
solute carrier family 38 member 11 [Source:HGNC Symbol;Acc:HGNC:26836]
Coordinates
chr2:164915112-164915973:-
Coord C1 exon
chr2:164915903-164915973
Coord A exon
chr2:164915274-164915902
Coord C2 exon
chr2:164915112-164915273
Length
629 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCTTTTTTTTTGTATTGCAGCAT
3' ss Score
10.41
Exon sequences
Seq C1 exon
ACCAAAAACAGAAGACGCTTGGGTATTTGCAAAGCCCAATGCCATTCAAGCGGTCGGGGTTATGTCTTTTG
Seq A exon
GTGAGTATTTGGTTTCAAAGGCCCTTTCTCAATGTGGAGTTCTCTGTTCCATGAAAAAGTGCTGTGTTTCATATTTATGTCTGGATAGCAGATGTCCTAAGTTTTAGACTTCCTATTAGCAGCATATGATCTAGTTTGTGCCAATATAAAATTAGGCTCAAACTTTTCTCACTCATCACTAAAATTTGCTTCAATTTGGAGAAATCTATTTCTCATGCAGAAACTCATTACAGTCATCTTGTTTCTTAACTTGGAAGGCTAGCAAGTGTTATGGACTTCTTCAAACCCTTTATTATGTCCCAAATGGCAAAGGAAGCCACAGGATGAAAACGATGGGAAAAAGATTTCCTTCAGATGGGAAGGGTCATTAGGAAAAGGAAAATGAGAGAGAATGTTGGACTGGCCTGGTTTATATCAAGAGTAACATGAAAAGACCACATAAGCCTGATGTGAATGAATGGTCTCATTTCTAGAACTATTAGAAAAATTATTTTCTGACATATTAATAAAGTTGTATGTTTAAACTTCAGTTCATTGGCATCTAAAGTAGTATATATCTCTGAATTTCAGAACTAAAAAAGAAAACCCTGGTGCTTGATTTAATAATGCTCTTTTTTTTTGTATTGCAG
Seq C2 exon
CATTTATTTGCCACCATAACTCCTTCTTAGTTTACAGTTCTCTAGAAGAACCCACAGTAGCTAAGTGGTCCCGCCTTATCCATATGTCCATCGTGATTTCTGTATTTATCTGTATATTCTTTGCTACATGTGGATACTTGACATTTACTGGCTTCACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169507:ENST00000303735:6
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:
PF0149013=Aa_trans=PU(8.9=40.0)
A:
NA
C2:
PF0149013=Aa_trans=FE(15.8=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:
CCAAAAACAGAAGACGCTTGGG
R:
TGGGTGAAGCCAGTAAATGTCA
Band lengths:
230-859
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