HsaINT0153401 @ hg19
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4, anion exchanger, member 3 [Source:HGNC Symbol;Acc:11029]
Coordinates
chr2:220500395-220501172:+
Coord C1 exon
chr2:220500395-220500613
Coord A exon
chr2:220500614-220501023
Coord C2 exon
chr2:220501024-220501172
Length
410 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TCCTACCCGTGCTATGGCAGGAG
3' ss Score
4.59
Exon sequences
Seq C1 exon
AACTGTCTTTGGAGTTGGGGGGCTCTGAAGCAACCCCTGAAGATGACCCCTTGCTGCGGACGGGCTCGGTATTTGGGGGGCTTGTGCGGGATGTGAGGCGCCGGTACCCGCACTACCCCAGTGACCTGCGAGATGCGCTGCACTCCCAGTGTGTGGCCGCTGTGCTCTTCATCTACTTCGCAGCCCTCAGCCCTGCCATCACCTTCGGGGGGCTGCTGG
Seq A exon
GTAAGGGACTGGGGCTTGGGGAGTTGAGGGGCTCCTCTAGTCACTTCTGGTCCCAGTGTCACTTGCAGGATTCTGGGTCTGGGTGTGATCACATTAGGGGGCCAATGGTTAGATGTGCTAGCAAAGGTGTAAGCACCTTACAGAGATGCTGGATCAGGGAATCCCAGCGATCACCTTTGGGGAGCTATAAAGTGAGGGTGTGGGAGAGGTGTAAGGGATGAGGGATCCTGTGATCACCATTGGGGGCTAGTGGGGAGGGTTTGGGAGCAATGGGGTATGGAAGGGGCCCTGTGTGTCACTCTAAGGGGCTGCTCTGCTTTTGTTGGGGGCCCCAGTTTAGGACAAGCTAGATGAAGAAGGGGGCAGATAGACAGAGCCAGGCTAGGGCCATCCTACCCGTGCTATGGCAG
Seq C2 exon
GAGAGAAGACCGAGGGGCTGATGGGCGTGTCCGAGCTGATCGTGTCCACCGCTGTGCTCGGCGTCCTCTTCTCTCTGCTGGGAGCTCAGCCGCTGCTTGTGGTTGGCTTCTCTGGGCCGCTGCTTGTGTTTGAGGAAGCCTTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923-SLC4A3:NM_005070:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(11.7=77.0)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGTCTTTGGAGTTGGGGG
R:
GCTTCCTCAAACACAAGCAGC
Band lengths:
358-768
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)