GgaINT0035826 @ galGal3
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
NA
Coordinates
chr8:6936229-6936494:+
Coord C1 exon
chr8:6936229-6936287
Coord A exon
chr8:6936288-6936374
Coord C2 exon
chr8:6936375-6936494
Length
87 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GCCTTGGTCTCCAATGCCAGCAG
3' ss Score
3.72
Exon sequences
Seq C1 exon
GGGATGCTGAGGAGCCCCAGGATGCCCATGGGGTGCAGCAGCCGATGCTGGCAGAGCTG
Seq A exon
GTGAGTTGAGGCAGTCACACCATGGTGCTTGGGGTTGGGATGCGGGACTCACAGGTGCTGTGTTCCAGCCTTGGTCTCCAATGCCAG
Seq C2 exon
CAGGAATTAAGCACAAGGGCTCGCTCGGCCTCGGAGAGCTCCACAGCATCCCTGGAGGAAGACAGCCAGACATCTTCAGACAGCCCTGCTGAGGAGCTGGAGGGGACATCGGAGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.975
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
ATGCTGAGGAGCCCCAGGAT
R:
CTTGTCCTCCGATGTCCCCTC
Band lengths:
176-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]