GgaINT0018362 @ galGal4
Intron Retention
Gene
ENSGALG00000001045 | SLC4A9
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr13:981646-982003:+
Coord C1 exon
chr13:981646-981738
Coord A exon
chr13:981739-981830
Coord C2 exon
chr13:981831-982003
Length
92 bp
Sequences
Splice sites
5' ss Seq
ACCAGGCTG
5' ss Score
-23.74
3' ss Seq
ATCCTCACAGCCTCCTGCAGCCT
3' ss Score
0.5
Exon sequences
Seq C1 exon
GCCATGTCTCAGCAGGCAACAACACGCTGTCTCCTCCACCTACAGCCCTGCAGCAGGTACAGACCCTTCTCCTGGGAGGGGACACACAGTACC
Seq A exon
AGGCTGCCCACACTGGCCCTTTGGCTCTAGTGCCACATCCGTGGCTCATTTCCCCCCCTTCACCATTCCCACATCCTCACAGCCTCCTGCAG
Seq C2 exon
CCTTGGTCGCACTGAGCCGGGCCCAGTGCCTGGGCCGAGGAGGCCACCTCCTGGGGACCAGCTGCCAGTATGTGCCTGACATTGCTCTTCTGTCCTTCCTCCTCTTTGGAGGCACCTTCCTCTGCTGCACCACACTCAAGCATTTCAAGAGCAGCTGCTACTTCCCCATGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001045:ENSGALT00000001559:14
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(6.7=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(12.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGTCTCAGCAGGCAACAA
R:
AGCAATGTCAGGCACATACTGG
Band lengths:
178-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]