HsaINT0153397 @ hg19
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4, anion exchanger, member 3 [Source:HGNC Symbol;Acc:11029]
Coordinates
chr2:220497996-220498701:+
Coord C1 exon
chr2:220497996-220498179
Coord A exon
chr2:220498180-220498601
Coord C2 exon
chr2:220498602-220498701
Length
422 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
TTCCAGTTCTGCGTCCTCAGAAG
3' ss Score
5.09
Exon sequences
Seq C1 exon
CCATCCCAACGATGACAAGGACAGTGGCTTCTTTCCCCGAAACCCATCGAGCTCCAGCATGAACTCGGTTCTGGGGAATCATCACCCAACTCCCAGCCATGGCCCTGATGGGGCGGTGCCTACCATGGCTGATGACCTGGGGGAGCCAGCCCCACTCTGGCCACATGACCCTGACGCCAAGGAG
Seq A exon
GTCAGTGCCCTTGCTTTGGCTTGGGCCAGGGGACTGAGAGGGTGTCCAGTTTCAGTCGAGGTCATCGACGACTTCACTGAGTGGGTTGGGAAGGTTGGATTGCTGGCATCATGCTGGGCATTCGGGGACCTAGAGGAGACCCGCATGAGGGGTCCCTGCCCTGAGACGCAGGAGTTTTGAATGTGATGATGTGGCAGACCCACAGGAGCTGTTTAAACAAGATAAGGCTGAGGTGGTAGTTGGGGACATCGAGGCAGGGTCCACATCCCAGCTGGTGGCTCCCAGTGTGGGGCCACAGTGCAGTACCTGCCTACTCTGGGAGGGAGAAGCAGGTCTCAGAGCCAGGGCTGGAGCCAGGGCTGGGAGGGCCTGCCACGGCCTCCGGTCTGGGTCCCAGCCCTATTCCAGTTCTGCGTCCTCAG
Seq C2 exon
AAGCCCCTCCACATGCCTGGGGGAGATGGTCACCGGGGGAAAAGCCTGAAGCTGCTGGAGAAGATCCCTGAAGATGCTGAGGCCACGGTTGTGCTTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923-SLC4A3:NM_005070:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.949 A=NA C2=0.655
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(41.7=88.7)
A:
NA
C2:
PF075658=Band_3_cyto=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAACGATGACAAGGACAG
R:
CAAGCACAACCGTGGCCTC
Band lengths:
278-700
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)