HsaINT0153387 @ 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
chr7:150772693-150773273:+
Coord C1 exon
chr7:150772693-150772862
Coord A exon
chr7:150772863-150773099
Coord C2 exon
chr7:150773100-150773273
Length
237 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACCTGTCTCCGCCCCCCAGGTC
3' ss Score
10.84
Exon sequences
Seq C1 exon
GCCTCTCCATAGTTATCGGGGATCTGCTCCGGCAGATCCCCCTGGCCGTGCTCTTTGGAATTTTCCTGTACATGGGAGTCACCTCCCTTAACGGGATCCAGTTCTATGAGCGGCTGCATCTGCTGCTCATGCCGCCCAAACACCACCCAGATGTCACTTACGTCAAGAAG
Seq A exon
GTGAGCCCCCCAGCTCCCCACCGGAAGGGGTGTGCCTCTGGCCATCCTGGTCTACTTGGGTCACTCTCCAGCTGCCCCCTCCCATCTGCCCAGTTCAGCCAGCCCCCACCTCCTCTCTGTACCAACCCAGCTCTGGCACCTAGGAATGTTCTTCCATCCCCGCCTCCGAAGAAGAGAGAGGCTCTTCCCAGCAGCAGGCTAGGGAGGAAGCTGGGCTCACCTGTCTCCGCCCCCCAG
Seq C2 exon
GTCCGGACCCTCCGTATGCACCTGTTCACGGCCCTGCAGCTGCTCTGCCTGGCCCTGCTCTGGGCCGTCATGTCCACAGCTGCCTCCCTGGCCTTCCCCTTCATCCTCATCCTCACAGTGCCGCTCCGCATGGTGGTGCTCACCCGTATCTTCACCGACCGAGAGATGAAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889-SLC4A2:NM_003040:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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=PD(2.2=19.0)
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:
TGGCCGTGCTCTTTGGAATTT
R:
TCTCGGTCGGTGAAGATACGG
Band lengths:
292-529
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)