HsaINT1042108 @ hg38
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4 member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:219627960-219628570:+
Coord C1 exon
chr2:219627960-219628043
Coord A exon
chr2:219628044-219628404
Coord C2 exon
chr2:219628405-219628570
Length
361 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATC
5' ss Score
4.28
3' ss Seq
GAGGCCGTCTGGGCCTGCAGGTC
3' ss Score
5.55
Exon sequences
Seq C1 exon
TGAGCGAGAGCGTCCCCAGCCGCCTACCTGGCCATGGCCAACGGAGTGATCCCGCCGCCCGGGGGCGCCTCCCCCCTACCCCAG
Seq A exon
GTGATCGGCGCGCGCGGGGGCGGGGGAGAGATGGGGGAGGAGAGGGGAGGGACCTTAGGGTGGGCAGAGGAGTCCTCTGGCCGACCCCGGGACCCCCCAGATCCAGGGATGAGCTGGGCTGGGGGTTACGGAGAAAGAGGGGGGTTTTTGATATTTTCCAGATCCGTAGCCCTCTCTCTTTACAAGCTCTGGGAGCCCAGAGAGGGTGGTTTCTGGGATGCTGACACAGGCCTGGGAGCAAGGGGAGGGGGCCCGATGGTGTGAGAGCCTGCTGAGCTCCCCCAACTAGGGCTTGGAGTTGGGGTGGGTGTGGGGCCTTCATGGGTCAGGGGTCCTTAGCAGAGGCCGTCTGGGCCTGCAG
Seq C2 exon
GTCCGGGTGCCCTTGGAGGAGCCCCCTCTAAGTCCAGACGTGGAGGAGGAGGACGATGACTTGGGCAAGACCTTGGCTGTGAGCAGGTTTGGGGACCTCATCAGCAAGCCCCCGGCCTGGGACCCCGAGAAGCCCAGCCGCAGCTACAGCGAGCGGGACTTTGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923:ENST00000273063:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CATGGCCAACGGAGTGATCC
R:
CAAAGTCCCGCTCGCTGTAG
Band lengths:
215-576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains