GgaINT0035830 @ galGal4
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
protein transport protein Sec16B [Source:RefSeq peptide;Acc:NP_001026440]
Coordinates
chr8:6608569-6608758:+
Coord C1 exon
chr8:6608569-6608612
Coord A exon
chr8:6608613-6608710
Coord C2 exon
chr8:6608711-6608758
Length
98 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCTCCCTTTGCCCATTGCAGCCA
3' ss Score
9.38
Exon sequences
Seq C1 exon
TGTCGATCGACATGAAGGGCCCGTGGGATGCAGATGGCCACGAG
Seq A exon
GTGAGGAGAGCTGTGGCTGTGCCTGTGTCGGGGATGCTCTGCTTGGGGTGGCTGCGGAGCTGCGGTCAGCTCTAAGGTTCTCCCTTTGCCCATTGCAG
Seq C2 exon
CCACTCCCAGGGATGGTTCCGCTTTTCAACCCTGCTCAGGTTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:24
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=1.000
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
(hg38)
No conservation detected
Human
(hg19)
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:
GTCGATCGACATGAAGGGCC
R:
GAGCAGGGTTGAAAAGCGGAA
Band lengths:
80-178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]