RnoINT0132284 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3872190-3872596:-
Coord C1 exon
chr3:3872479-3872596
Coord A exon
chr3:3872302-3872478
Coord C2 exon
chr3:3872190-3872301
Length
177 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
ATCGCTTTCTCTCTCTCCAGCAT
3' ss Score
10.06
Exon sequences
Seq C1 exon
TGTTGTGGAGATGAGAAATGGGGAGATTGGAGGCCACATCTTGCAATGGTTTTGTCCAACCTGAACAACAACATGGATGTGGAATCTCGGACCATGGCTACCATGGGTGATACCCTAG
Seq A exon
GTGGGTTAGGTGTGAAGTGGGCCTTTGGCTGTCATGTGATTGACCCCAGAGTCTGACTGTGTGAATAGCTGTGCCAGAACCACAAGAGACATGGCTTTCCTAAGTCTAATGTCTCTGGCACCTTCCCTGAAGCGTTTCCTAGGACTGATGAGATGTGATCGCTTTCTCTCTCTCCAG
Seq C2 exon
CATCAAAAGGCCTGCTGGATGCCGCACATTTTTGCTACCTCATGGCCCAGGTTGGATTTGGGGTTTATACAAAGAAAACTACCAAACTTGTTTTGATAGGCTCAAATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(14.7=100)
A:
NA
C2:
PF129312=Sec16_C=FE(14.0=100)
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:
TGTGGAGATGAGAAATGGGGAGA
R:
TGAGCCTATCAAAACAAGTTTGGT
Band lengths:
219-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]