GgaINT0018354 @ galGal3
Intron Retention
Gene
ENSGALG00000001045 | SLC4A9
Description
NA
Coordinates
chr13:1427689-1427970:+
Coord C1 exon
chr13:1427689-1427802
Coord A exon
chr13:1427803-1427819
Coord C2 exon
chr13:1427820-1427970
Length
17 bp
Sequences
Splice sites
5' ss Seq
CAGAGGAGG
5' ss Score
-5.76
3' ss Seq
CAGAGGAGGTNNNNNNNNNNAAC
3' ss Score
0
Exon sequences
Seq C1 exon
AGATGGCACAGAGAGGTTTTACAGGTCAGGACCTGTGTCTGTCACTGCAGGACACAGCCTCCCTGACGTGTTCTCAGTGGGGGAAGCAGAGAGTCCCCAGGCCACAGGGCCCAG
Seq A exon
AGGAGGTNNNNNNNNNN
Seq C2 exon
AACAATTTAAGAAGAAGCTCCTGCCAGGGGCTGAAGTAGCCAGCATTATGGTCGGGGAAGTCGACTTCCTGAAGAAGCCATTTCCCGTCTTCATTCGCTTAAGAGAGGCTGTGACCCTTGGCTCACTGACTGAAGTTGCCCTCCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001045:ENSGALT00000001559:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(15.2=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(20.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCCTGACGTGTTCTCAGT
R:
CCCGACCATAATGCTGGCTAC
Band lengths:
113-130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]