GgaINT0123809 @ galGal3
Intron Retention
Gene
ENSGALG00000004986 | CERCAM
Description
NA
Coordinates
chr17:5565345-5565630:-
Coord C1 exon
chr17:5565507-5565630
Coord A exon
chr17:5565422-5565506
Coord C2 exon
chr17:5565345-5565421
Length
85 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
GATTTTCCATCTCTCTGCAGTGG
3' ss Score
9.35
Exon sequences
Seq C1 exon
GCAGGTGCTGAGGTCCACGTGTGCAACCAGCAGCGCTTTGGCTACATCAACGTCCCCGTGAAGGCCCATCAGACGCTGGAGGATGAGCGCGTCAACTTTGTGCATCTCACGCTGGAGGCCATGG
Seq A exon
GTGAGCTCCAGGGGGTCCCCGTGCCGTTCCTGTCAGTGACAGAGGGCTGTGGGCTCCATGGAAGGGATTTTCCATCTCTCTGCAG
Seq C2 exon
TGGATGGTCCCCCCATGCAGCGCTCCCGGCACATCTCTGTCCCGCCCAAACCACTCACCAAATTGGGCTTTGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004986:ENSGALT00000007990:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.190
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0175512=Glyco_transf_25=PU(1.1=9.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAGCGCTTTGGCTACATC
R:
AAGCCCAATTTGGTGAGTGGT
Band lengths:
167-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]