GgaINT0035828 @ galGal4
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
protein transport protein Sec16B [Source:RefSeq peptide;Acc:NP_001026440]
Coordinates
chr8:6608136-6608489:+
Coord C1 exon
chr8:6608136-6608234
Coord A exon
chr8:6608235-6608410
Coord C2 exon
chr8:6608411-6608489
Length
176 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CCAGGTCAATGCACTTACAGGAT
3' ss Score
4.87
Exon sequences
Seq C1 exon
AGCTCTGGGTTCCGGTGGTTCGGCTGGTTTCGGTCCAAGCCCCAGAAGGAAACCTCACCCAAAGCCACGACCTCAGGCTCCCCCACGCCGGGACTGCAG
Seq A exon
GTAGGGGTGACACCCAGGGTGCAGCATGGCAGCGGTGGCACGTTGCTCCCTTCATCCCTCCTCTCCATCCTTTTACCCTGGAAGCGAATCCTTTACTGATAATAACTGTAAATAAATGGAGTGCCTTTGCTGCGTGAGCTGTGCTCGGTGCCCTCACCAGGTCAATGCACTTACAG
Seq C2 exon
GATCGGAGGTCCCCATCCCCACCCGGTGCTGTCCCTTCGGCTCAGCCCCCAGCATCCCCATCTCCTTACAGAAACCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.939 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
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:
AGCTCTGGGTTCCGGTGG
R:
CAGGGTTTCTGTAAGGAGATGGG
Band lengths:
178-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]