GgaINT0018360 @ galGal3
Intron Retention
Gene
ENSGALG00000001045 | SLC4A9
Description
NA
Coordinates
chr13:1431763-1432293:+
Coord C1 exon
chr13:1431763-1431896
Coord A exon
chr13:1431897-1432021
Coord C2 exon
chr13:1432022-1432293
Length
125 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGA
5' ss Score
6.87
3' ss Seq
TGGGCCACTCTCCCTACTAGGGA
3' ss Score
6.27
Exon sequences
Seq C1 exon
GGTGTACTGGAGAGCTTCCTGGGCACTGCCTTCACTGGCTTCATCTTCTGCCTCTTCTCTGGCCAGCCCCTGACCATCTTGAGCAGCACTGGCCCAGTTCTGGTCTTTGAGCGTCTCCTCTTCTCCTTCAGCGA
Seq A exon
GTAAGAACTGTGTGAGGGCATCTCCCCATGTGGCAGCCCCCAGCTGCACCATCCCTGGACTGAGCACAGGCTGCTTTCACATGGCTGAGTGCCATAGTGAGGGTCTGGGCCACTCTCCCTACTAG
Seq C2 exon
GGACTACGGTCTGGACTACCTGGAGTTTCGTCTTTGGATTGGGCTCTGGGTGGCCTTTTTTGGCTTGGTTTTGGTGGCCACTGAAGCGAGTCACCTGGTGCAGTACTTCACCCGCTTCACTGAGGAAGGCTTCTGTGCCCTCATCAGCCTGATCTTCATCTATGACTCTCTAAAGAAGATGCTGAGCCTAGCAGAAGCCTTCCCCATCAACTGGCACTACCGGGCTGATGATGTGACCTTGTACAGCTGCACTTGCAACTTGTCTGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001045:ENSGALT00000001559:10
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(8.4=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(17.4=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:
GGCCCAGTTCTGGTCTTTGAG
R:
CCAGTTGATGGGGAAGGCTTC
Band lengths:
258-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]