HsaINT0153389 @ 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
chr7:150761289-150761854:+
Coord C1 exon
chr7:150761289-150761454
Coord A exon
chr7:150761455-150761612
Coord C2 exon
chr7:150761613-150761854
Length
158 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGG
5' ss Score
2.87
3' ss Seq
AGTCCCCCTCCTCCCTGCAGACC
3' ss Score
11.46
Exon sequences
Seq C1 exon
CCAGAGCCAGAGAGCTTGGGCCCTGGGACGCCTGGGTTCCCCGAGCAGGAGGAAGACGAACTTCACCGCACCCTGGGCGTGGAGCGGTTTGAGGAGATCCTACAGGAGGCCGGGTCTCGTGGAGGGGAGGAGCCAGGCCGCAGCTATGGGGAGGAAGACTTTGAGT
Seq A exon
GTGAGGGGGCAGGCAGGGGAGGGGGAGGTGGGGGGATCAGGTTTGACTGTCCAGCAAAGAAGGGACTGGGGTCCTAGTGGGAGGAGTGGGGCTAGGGGGCAGGATGGCAGGGGAGGGACACTGTGCCTGCCACAGCCAAGTCCCCCTCCTCCCTGCAG
Seq C2 exon
ACCACCGCCAGTCCTCCCACCACATCCATCACCCACTGTCCACCCACCTGCCTCCGGATGCACGCCGCCGCAAGACACCCCAGGGCCCAGGACGGAAGCCTCGAAGGCGCCCGGGAGCCTCCCCGACTGGAGAAACCCCGACCATTGAGGAGGGGGAGGAAGATGAGGATGAGGCCAGCGAGGCTGAGGGGGCCCGGGCTCTCACTCAGCCGTCCCCTGTCTCCACACCCTCCTCGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889-SLC4A2:NM_003040:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTGGAGCGGTTTGAGGAGATC
R:
CTCATCTTCCTCCCCCTCCTC
Band lengths:
255-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)