HsaINT0153521 @ hg19
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 9 [Source:HGNC Symbol;Acc:11035]
Coordinates
chr5:139743639-139744210:+
Coord C1 exon
chr5:139743639-139743772
Coord A exon
chr5:139743773-139743947
Coord C2 exon
chr5:139743948-139744210
Length
175 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CCTGTCTCTCATCCCCACAGAGA
3' ss Score
11.99
Exon sequences
Seq C1 exon
GGAGTGCTGGAAAGTTTCCTGGGCACAGCAGTGGCTGGAGCTGCCTTCTGCCTGATGGCAGGCCAGCCCCTCACCATTCTGAGCAGCACGGGGCCAGTGCTGGTCTTTGAGCGCCTGCTCTTCTCTTTCAGCAG
Seq A exon
GTAGGAGAGCTCCCCCCATCACCGGACCCTCACTAGTGCCATGGTCAGCCTGCTCCTGGCTGGGTGAATAGGAGAGAGTGGGAGCTATCTGTTTGGGTTGAGGGACACCTGACCTGGGTTTAGTGGGAAGCAGACAGCCCTGCTAAGCCAGCCTTCCTGTCTCTCATCCCCACAG
Seq C2 exon
AGATTACAGCCTGGACTACCTGCCCTTCCGCCTATGGGTGGGCATCTGGGTGGCTACCTTTTGCCTGGTGCTGGTGGCCACAGAGGCCAGTGTGCTGGTGCGCTACTTCACCCGCTTCACTGAGGAAGGTTTCTGTGCCCTCATCAGCCTCATCTTCATCTACGATGCTGTGGGCAAAATGCTGAACTTGACCCATACCTATCCTATCCAGAAGCCTGGGTCCTCTGCCTACGGGTGCCTCTGCCAATACCCAGGCCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073-SLC4A9:NM_031467:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(21.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(17.1=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:
CCTCACCATTCTGAGCAGCAC
R:
GTTCAGCATTTTGCCCACAGC
Band lengths:
253-428
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)