HsaINT0153383 @ hg38
Intron Retention
Gene
ENSG00000164889 | SLC4A2
Description
solute carrier family 4 member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr7:151074399-151074841:+
Coord C1 exon
chr7:151074399-151074488
Coord A exon
chr7:151074489-151074674
Coord C2 exon
chr7:151074675-151074841
Length
186 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ACACTGTGTCTGCCCTGCAGAAG
3' ss Score
9.73
Exon sequences
Seq C1 exon
ATCCGGCGGGTGATTGGGGACTTTGGGGTGCCCATCGCCATCCTCATCATGGTGCTTGTGGATTACAGTATTGAGGACACCTATACCCAG
Seq A exon
GTAAGGTGCTGCCCACAGCAGGCAAGTGCTGCTGCCTCTGCCACCCCGGGTCTAGGTGTTCCCCTCCAGCCTCCAAACCCAGCCTGTCCTTAAGCTTAAGCCTGTCCTTAAGATGCCATCCCCTTTCCATGGCATGCCCTCCACATTCACCTTAACCCTTGTCCCTACACTGTGTCTGCCCTGCAG
Seq C2 exon
AAGCTGAGCGTTCCCAGTGGATTCTCGGTGACTGCCCCAGAAAAGAGGGGCTGGGTCATCAACCCCCTGGGAGAGAAGAGCCCCTTCCCTGTGTGGATGATGGTTGCCAGCCTGCTGCCCGCCATCCTGGTCTTCATTCTCATCTTCATGGAGACACAGATCACCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889:ENST00000413384:18
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:
PF0095516=HCO3_cotransp=FE(5.8=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.1=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:
GTGATTGGGGACTTTGGGGTG
R:
GTGGTGATCTGTGTCTCCATGA
Band lengths:
248-434
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