HsaINT0153382 @ hg19
Intron Retention
Gene
ENSG00000164889 | SLC4A2
Description
solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 3-like 1) [Source:HGNC Symbol;Acc:11028]
Coordinates
chr7:150771126-150771575:+
Coord C1 exon
chr7:150771126-150771380
Coord A exon
chr7:150771381-150771485
Coord C2 exon
chr7:150771486-150771575
Length
105 bp
Sequences
Splice sites
5' ss Seq
CGGGTGCGT
5' ss Score
7.91
3' ss Seq
CGCTGTGCCTGCCCACTCAGATC
3' ss Score
7.73
Exon sequences
Seq C1 exon
ATCTTCCAGGAGCACCCCCTGCATGGCTGCTCAGCCTCCAACAGCTCAGAGGTGGACGGCGGTGAGAACATGACATGGGCCGGGGCAAGACCCACGCTGGGGCCGGGCAACAGGAGCTTGGCTGGGCAGTCTGGGCAGGGGAAGCCCCGGGGCCAGCCCAACACGGCCCTGCTGTCGCTGGTGCTCATGGCCGGCACCTTCTTCATCGCCTTCTTCCTGCGCAAATTCAAGAACAGCCGGTTCTTTCCTGGCCGG
Seq A exon
GTGCGTGGGCTTAAAGGCCAAGAGGGGGTTAGGGGCAGGAAGGGGGGTGGCAGGAAGTCAGCGGCTGTGGTGGCAGGACTCTGAGCGCTGTGCCTGCCCACTCAG
Seq C2 exon
ATCCGGCGGGTGATTGGGGACTTTGGGGTGCCCATCGCCATCCTCATCATGGTGCTTGTGGATTACAGTATTGAGGACACCTATACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889-SLC4A2:NM_003040:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(16.9=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(5.8=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:
GGTGAGAACATGACATGGGCC
R:
CATGATGAGGATGGCGATGGG
Band lengths:
246-351
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)