HsaINT0153535 @ hg19
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 9 [Source:HGNC Symbol;Acc:11035]
Coordinates
chr5:139741393-139741759:+
Coord C1 exon
chr5:139741393-139741448
Coord A exon
chr5:139741449-139741601
Coord C2 exon
chr5:139741602-139741759
Length
153 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTCCTTGAACCCCCATCCAGTGT
3' ss Score
4.64
Exon sequences
Seq C1 exon
GCTCTACTCATCCAAGAAAGGCTTCTGACAATGAGGAAGCCCCCCTGAGGGAACAG
Seq A exon
GTTTGTGGCCCTTCCTTGGGGTCCCTTTCCAGTGGCTGGGAGAGGGGTTAGAAATTAACAAAAGTCTACTCTCCACTGGATTTCTCATCATTTGAGATCTTATCCTCCCCAAATAACCTTTCATATTCTGTGTCTCCTTGAACCCCCATCCAG
Seq C2 exon
TGTCAGAACCCCCTGAGACAGAAGCTACCTCCAGGAGCTGAGGCAGGGACTGTGCTGGCAGGGGAGCTGGGCTTCCTGGCACAGCCACTGGGAGCCTTTGTTCGACTGCGGAACCCTGTGGTACTGGGGTCCCTTACTGAGGTGTCCCTCCCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073-SLC4A9:NM_031467:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(12.2=63.2),PF075658=Band_3_cyto=PU(13.0=94.7)
A:
NA
C2:
PF075658=Band_3_cyto=FE(37.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTACTCATCCAAGAAAGGCT
R:
CTGCTTGGGAGGGACACC
Band lengths:
214-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)