RnoINT0132307 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3875169-3875476:-
Coord C1 exon
chr3:3875415-3875476
Coord A exon
chr3:3875308-3875414
Coord C2 exon
chr3:3875169-3875307
Length
107 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
GGTGTTCATTCTTTCCCCAGAGA
3' ss Score
8.59
Exon sequences
Seq C1 exon
ACCTTGCTGCAGCACACACCTGAGCAGGAAGAAATGCGCTCCTTCCCAGGACCTCTCGGCAA
Seq A exon
GTAAGGTCCCCACTGTGCTGCCTCTCGATGTCTGTCATAAGGGCGGCTGCTGAGTTTGGCTCACAGCTTTGGTACCACCATTCACTGGGTGTTCATTCTTTCCCCAG
Seq C2 exon
AGATGACACTCACAAAGTAGATGTTATTAACTTTGCACAAAACAAAGCGACAAAATGTTTGCAGAATGAAAGTTTAATTGACAAAGAGTCTGCAAGTCTTCTTTGGAACTTCATTATTCTGTTATGCAGACAGAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.905 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF129322=Sec16=FE(19.4=100)
A:
NA
C2:
PF129322=Sec16=FE(44.7=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:
GCAGCACACACCTGAGCAG
R:
TGCATAACAGAATAATGAAGTTCCA
Band lengths:
182-289
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]