GgaINT0018366 @ galGal4
Intron Retention
Gene
ENSGALG00000001045 | SLC4A9
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr13:984531-984977:+
Coord C1 exon
chr13:984531-984709
Coord A exon
chr13:984710-984904
Coord C2 exon
chr13:984905-984977
Length
195 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
GCCTGCACTGCTGCCTGCAGGGA
3' ss Score
7.16
Exon sequences
Seq C1 exon
AAAGGGGCAGGCTTTCACCTGGACTTCCTCTGCGTCTCACTCCTGATGATCTTCACCTCTGTGATGGGCCTCCCCTGGTACGTGTCAGCCACTGTCATCTCCCTGGCACACATGGAGAGCCTCAGGAAGGAGAGCACCGCCTCAGCTCCAGGCGAGCAGCCCGAGTTCCTGGGCATCAG
Seq A exon
GTACGGCCTGAGCTCAGCTGTACAGTGAGTTGCTCCCCATCCGGGCTGGAGCCCCTACTCTGGGGGACTCCTGCACCTCTCCTTCCCACAGCAGTGGCACCAGGGGAACAGGCTGCTGCTCACGCAGGCTGATGGGGGCTGTGGGTGCCTGGGAGAGCCTGGACACTCCTGTGATGCCTGCACTGCTGCCTGCAG
Seq C2 exon
GGAGCAGAGGCTGACCGGCCTGGTGGTCTTCATCCTGACTGGAGTCTCTGTCTTCCTGGCACCCATTCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001045:ENSGALT00000001559:18
Average complexity
IR
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(12.7=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(5.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTTTCACCTGGACTTCCT
R:
TGAGAATGGGTGCCAGGAAGA
Band lengths:
242-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]