RnoINT0132296 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3862604-3863186:-
Coord C1 exon
chr3:3863075-3863186
Coord A exon
chr3:3862742-3863074
Coord C2 exon
chr3:3862604-3862741
Length
333 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TGCCCCCTTCTCATTGGTAGGTG
3' ss Score
8.64
Exon sequences
Seq C1 exon
AAGAAGGCTCCACCCCCACCTCCAACATCGTTCCCCAGGGTTCCCCAGGCGGCTCCCACTGGGCCTGCAGGACCACCCATGGCCTCCGTGAATGTGTTTTCTAGAAAAGCAG
Seq A exon
GTAATAATAGCTACAGTGAAATCAGAGGCATCTGTATAGAACATGGTGCTATGACATCCAGAGCTCAGTCAGCTGTCGTGATGCTTACGCTGTCCGTGCTAGGGAGAATGCATTTCTACCCTTGAGAGAAAAGCCCAGTTACCCAGTACATGAAGGGATCCAAGTTTTCTATTAGTAAATATGCAACCCGTGTGCCTGGGTAAAACGGAAACTAAGCTCATAGTCAATTCTGCTATGGGTCTCATTAGTTCCTCTGATTCAGCATGGATCAGGTTGGTTGGATATTGGAAGTCGCTCAGTGCTCACCGGAATTTGCCCCCTTCTCATTGGTAG
Seq C2 exon
GTGGGTCCAGAGCTCGCTATGTGGATGTTCTCAACCCAAGTGGAACACAGCGGAGTGAACCAGCTCTTGCTCCTGCGGATTTCTTTGCTCCTCTTGCCCCGCTGCCAATCCCTTCTAACTTATTTGTACCAAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.947 A=NA C2=0.823
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:
AAGAAGGCTCCACCCCCAC
R:
CAAATAAGTTAGAAGGGATTGGCAGC
Band lengths:
238-571
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]