GgaINT0018358 @ galGal3
Intron Retention
Gene
ENSGALG00000001045 | SLC4A9
Description
NA
Coordinates
chr13:1430418-1430923:+
Coord C1 exon
chr13:1430418-1430534
Coord A exon
chr13:1430535-1430748
Coord C2 exon
chr13:1430749-1430923
Length
214 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TCCTCTCTGGGCTGCTGCAGGCT
3' ss Score
6.69
Exon sequences
Seq C1 exon
GATCTCCATGCGCCTGCGGGAGTGGAAATCTCACTGCAATGGGAACACAACTGCTGTCAAGGACTGGCCTAGCCTGGCCCACCTGCATACCAGTGAGGAGCTAGAGAGGACAGGAAG
Seq A exon
GTCAGTGCATGCAGATGGGTGATGGACTGGGGTGAGGCCTCGCCTGCTACATCAGTCCTGGCTCCGCTGGACAGATTGCTGCTGCCAGGGCCACTGCCTCCAACCAGCACTGGCCAATGATTCCAAGCGGGGACTCTGCTCTCCAATGGTGGCCATGGCCAGTTGGAGGGTGCTCAGAGCCCTGCTGCCTCTTCTCCTCTCTGGGCTGCTGCAG
Seq C2 exon
GCTCTTTGGGGGGCTGATCCGAGACATCCGAAGGAAGGCACACTGGTATCGCAGTGATTTCTCTGATGCCATGCACATTCAGTGCCTCTCAGCAGTTCTCTACATCTACCTGGCAACGGTTACCAATGCCATCACCTTTGGGGGCATGCTGGGGGATGCAACAGCCAACATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001045:ENSGALT00000001559:8
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=PU(1.1=15.0)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGAGTGGAAATCTCACTGC
R:
CTGCATGTTGGCTGTTGCATC
Band lengths:
276-490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]