GgaINT0035826 @ galGal4
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
protein transport protein Sec16B [Source:RefSeq peptide;Acc:NP_001026440]
Coordinates
chr8:6607658-6607923:+
Coord C1 exon
chr8:6607658-6607716
Coord A exon
chr8:6607717-6607806
Coord C2 exon
chr8:6607807-6607923
Length
90 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTGGTCTCCAATGCCAGCAGGAA
3' ss Score
3.8
Exon sequences
Seq C1 exon
GGGATGCTGAGGAGCCCCAGGATGCCCATGGGGTGCAGCAGCCGATGCTGGCAGAGCTG
Seq A exon
GTGAGTTGAGGCAGTCACACCATGGTGCTTGGGGTTGGGATGCGGGACTCACAGGTGCTGTGTTCCAGCCTTGGTCTCCAATGCCAGCAG
Seq C2 exon
GAATTAAGCACAAGGGCTCGCTCGGCCTCGGAGAGCTCCACAGCATCCCTGGAGGAAGACAGCCAGACATCTTCAGACAGCCCTGCTGAGGAGCTGGAGGGGACATCGGAGGACAAG
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=0.974
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
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:
173-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]