HsaINT0153406 @ hg19
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4, anion exchanger, member 3 [Source:HGNC Symbol;Acc:11029]
Coordinates
chr2:220503425-220504457:+
Coord C1 exon
chr2:220503425-220503591
Coord A exon
chr2:220503592-220504203
Coord C2 exon
chr2:220504204-220504457
Length
612 bp
Sequences
Splice sites
5' ss Seq
GGCGTGAGA
5' ss Score
1.2
3' ss Seq
TCCCCACCTTCTCCCTGCAGGCT
3' ss Score
12.63
Exon sequences
Seq C1 exon
AAGCTGACAGTGCCTACAGGGCTCTCAGTGACCTCTCCCGATAAGCGCTCGTGGTTCATCCCACCCCTGGGCAGTGCCCGTCCTTTCCCGCCGTGGATGATGGTGGCAGCCGCTGTTCCCGCCCTCCTCGTCCTCATCCTGATCTTCATGGAGACACAGATCACGGC
Seq A exon
GTGAGAGAGATGGGAGGAGGAGGTGGGAGGGACGAGGCCAAGCTCCTTGGCTCCTTGGCTTGGTTTCAGGGTTATAGCAGGGACATCATTATCAGTATCAGGGTGCTGGGTGGTGGGAGCTGGTGGCAATCCTTGAGGAAGAGAGTGTGTGTGGAGGAGCTGGCAGGGGTGAGGAGGAGGTGGGGGAGGAGCAGAGAGCAGTGGCATCCGGGGCAGGGGCATGGTTTCCCCGTGATGGTTTGACATGACATCTATCTGTTGCCACCACTCTTTGCAGGGTGGCACTTGACAGTGCTCAGAACACTCTAGCAGTCTAAGCTTGCACCCAGGGATGCTCACATGTATCTAATTTTGGTTAAACCACAATAACGTGGTAAGATCTGGCATCTGGCTTTTGTGGTGTTTTAAATATTCACAGTATGAGAATTTGTCTCACATTTGCTTCAATGTGAGAACTTCAATTTGGGAACTTGAAAGAAGAAGCTGGCAGTCCTAGGGAGAACTGTTGTCTGCACGTCCTCCCCCCACCATCTCGTCTCTGTGTGCGTGCCTGTCTTTGTCCCCTGCCCCTGCCAGGCCAGCCACACCCCGCTCCCCACCTTCTCCCTGCAG
Seq C2 exon
GCTTATCGTCAGCCAGAAGGCGCGGAGGCTGCTCAAGGGCTCCGGTTTCCACCTGGACCTGCTCCTCATTGGCTCCCTGGGGGGGCTCTGTGGGCTGTTTGGGTTGCCCTGGCTCACGGCTGCCACGGTCCGCTCCGTCACCCATGTCAATGCGTTGACAGTGATGCGTACTGCCATCGCGCCTGGTGACAAGCCCCAGATCCAGGAGGTGCGGGAGCAGCGGGTCACTGGTGTGCTCATCGCCAGCCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923-SLC4A3:NM_005070:19
Average complexity
IR-S
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(11.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(17.4=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:
AAGCTGACAGTGCCTACAGGG
R:
GGCAGTACGCATCACTGTCAA
Band lengths:
342-954
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)