GgaINT0124997 @ galGal3
Intron Retention
Gene
ENSGALG00000004052 | GPR107
Description
NA
Coordinates
chr17:6433098-6433209:+
Coord C1 exon
chr17:6433098-6433133
Coord A exon
chr17:6433134-6433162
Coord C2 exon
chr17:6433163-6433209
Length
29 bp
Sequences
Splice sites
5' ss Seq
TTTCTTAAC
5' ss Score
-31.01
3' ss Seq
TAATCCAAGTAACTGTGCAGGTA
3' ss Score
-0.7
Exon sequences
Seq C1 exon
GCTTTATTTGCCTAGTGACTTTTAAATACTTGGTTT
Seq A exon
CTTAACATATAATCCAAGTAACTGTGCAG
Seq C2 exon
GTAGTCTTTGGAATATATTAACTGTTGAAGATACCAAACAACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004052:ENSGALT00000006449:16
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:
PF068148=Lung_7-TM_R=FE(4.1=100)
A:
NA
C2:
PF068148=Lung_7-TM_R=FE(5.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTAGTGACTTTTAAATACTTGGT
R:
TGAAGTTGTTTGGTATCTTCAACAGT
Band lengths:
74-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]