RnoINT0132297 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3862269-3862741:-
Coord C1 exon
chr3:3862604-3862741
Coord A exon
chr3:3862364-3862603
Coord C2 exon
chr3:3862269-3862363
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TGATGCTCCCTCATTCACAGATG
3' ss Score
8.95
Exon sequences
Seq C1 exon
GTGGGTCCAGAGCTCGCTATGTGGATGTTCTCAACCCAAGTGGAACACAGCGGAGTGAACCAGCTCTTGCTCCTGCGGATTTCTTTGCTCCTCTTGCCCCGCTGCCAATCCCTTCTAACTTATTTGTACCAAACCCAG
Seq A exon
GTATGCAGCTCATGCGTTAGCCCTGCTTCTTGATCCATTTCCATCCATGATCCTCTGGCCCTCGTCTTCTTAGAAGAATAACTGGGCCAAAGTGCAGAGGACCGAAGGCTTGTATATACGTCTTTGGCAATTGGACTTTCCTCCCTGAGGGTCAGTGGTTGAACCCTGCCATGTGGACTGTTACACAGAATGTCCCAGAGATTGGGCCGGCGTGATGACTTGATGCTCCCTCATTCACAG
Seq C2 exon
ATGCAGAAGAGTCACAACCTGCAGATGGGACTGGCTGTAGGGGACAGGCACCAGCTGGGACTCAATCTAAGGCAGAGCCCACCCTGGAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.823 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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGAGCTCGCTATGTGGAT
R:
CTTGGCTTCCAGGGTGGG
Band lengths:
228-468
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]