HsaINT0153396 @ hg19
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4, anion exchanger, member 3 [Source:HGNC Symbol;Acc:11029]
Coordinates
chr2:220492292-220492765:+
Coord C1 exon
chr2:220492292-220492467
Coord A exon
chr2:220492468-220492621
Coord C2 exon
chr2:220492622-220492765
Length
154 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCG
5' ss Score
8.5
3' ss Seq
ACCCCGCCCTCCTCCCCCAGGGC
3' ss Score
12.55
Exon sequences
Seq C1 exon
GCGGAGCGCGAGGAGGTGGAGCCGCGGGCTGCGGGCTCCGGCGCCTGCGTCCGCCCGGCCAGCCCGGCTCTGCGCTGCGAGAGGCCGGACGGCAGTCGCGGCTGCGCTCGGGAGAGAGCGCGGGGGACATGGGGCGCGGCGGCCCGCCTGGGCCTCGCAGGCTCCGGAGCCCCGAG
Seq A exon
GTACCGCGGGGCGGGGCACGCCGGGCAGGGCGGGGGACCCGGGCTGTCCCGGGCGTGGCTGGGCCTCGGAGGGGCGCTTGGGCCGGGAGCGTGCATCCGGCTCCCGGGTGGGGGGCGCCAGCGCAAGGAACCTGACCCCGCCCTCCTCCCCCAG
Seq C2 exon
GGCTCCCCGCTAGGCCCCCTCAGTGGCCCCTCCTTCTCACCTGGGTCTCGGGTCCCCTAGTGAGCGAGAGCGTCCCCAGCCGCCTACCTGGCCATGGCCAACGGAGTGATCCCGCCGCCCGGGGGCGCCTCCCCCCTACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923-SLC4A3:NM_005070:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCGCGAGGAGGTGGAG
R:
GCTCTCGCTCACTAGGGGAC
Band lengths:
244-398
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)