HsaINT0153386 @ 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
chr7:150772342-150772862:+
Coord C1 exon
chr7:150772342-150772595
Coord A exon
chr7:150772596-150772692
Coord C2 exon
chr7:150772693-150772862
Length
97 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGT
5' ss Score
7.7
3' ss Seq
TTCTCCTGCGCCTCCCGTAGGCC
3' ss Score
9.87
Exon sequences
Seq C1 exon
GCTCATCATCTCCAAGAAGGAGCGCATGCTGCAGAAGGGCTCCGGCTTCCACCTGGACCTGCTGCTCATCGTGGCCATGGGCGGCATCTGTGCCCTCTTTGGCCTGCCCTGGTTGGCTGCTGCCACTGTCCGCTCTGTCACTCACGCCAACGCGCTCACTGTCATGAGCAAGGCTGTGGCACCTGGGGACAAGCCCAAGATTCAGGAAGTCAAGGAGCAGCGGGTGACGGGGCTGCTGGTTGCCCTGCTTGTGG
Seq A exon
GTACGTTGCCTCTTGCCTTTCCCTTCCCAGTGGATTCCCCAGGGCTACTGGGGCCAGGGGACCCCGGGGCCAACTCTTTCTCCTGCGCCTCCCGTAG
Seq C2 exon
GCCTCTCCATAGTTATCGGGGATCTGCTCCGGCAGATCCCCCTGGCCGTGCTCTTTGGAATTTTCCTGTACATGGGAGTCACCTCCCTTAACGGGATCCAGTTCTATGAGCGGCTGCATCTGCTGCTCATGCCGCCCAAACACCACCCAGATGTCACTTACGTCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889-SLC4A2:NM_003040:20
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(17.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=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:
TTCAGGAAGTCAAGGAGCAGC
R:
ATGCAGCCGCTCATAGAACTG
Band lengths:
173-270
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)