GgaINT0035811 @ galGal4
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
protein transport protein Sec16B [Source:RefSeq peptide;Acc:NP_001026440]
Coordinates
chr8:6599153-6599514:+
Coord C1 exon
chr8:6599153-6599243
Coord A exon
chr8:6599244-6599384
Coord C2 exon
chr8:6599385-6599514
Length
141 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
CTTGCCATGCCACGGGCCAGCCC
3' ss Score
-1.1
Exon sequences
Seq C1 exon
GTCCCAGACCTATGATGCATATAAGGAGGGCTCCAGGCGTTCGTGGGCTGGGGTCAGCAATCTGGGGGAGGCCAGTGGCCAGCCTCAACAG
Seq A exon
GTAACCCAGAGACAAGCAGGGATGGGGGAAGACTTGGGGCTTTTGGGAGCCATTCCCATGCCCCCCTCCAGCTGGGAAAGAGGAAAGGTAAGCAAGTTTTAAGGACTTATTCTCTTTTTTCCTTGCCATGCCACGGGCCAG
Seq C2 exon
CCCAGCCTACTCCAGCAGTACCGTGAGTCAGGACTCAGCTCCAGTGGCTATGAGCTCAGCCAATACATCCGCGATGGAGCCGAACCCAACGACACTGCTTTTTTGGGGGGCTGGAGCCCGGTGCAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.806 A=NA C2=0.455
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCAGACCTATGATGCATAT
R:
CTCCTTGCACCGGGCTCC
Band lengths:
221-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]