RnoINT0132306 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3875415-3875867:-
Coord C1 exon
chr3:3875725-3875867
Coord A exon
chr3:3875477-3875724
Coord C2 exon
chr3:3875415-3875476
Length
248 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
CTCCGTCCCTCTCATTGCAGACC
3' ss Score
11.66
Exon sequences
Seq C1 exon
TTCCATCAAGACCGACCTCTCCTGAGAAGTTTACAGTGCCTCACGTCTGTGCCAGGTTTGGTCCTGGTGGTCAGCTCCTCAAAGTGATACCCAACCTGCCTTCAGAAGGACAGCCCGCATTGGTGGAGATCCACAGCTTAGAG
Seq A exon
GTAACCGTGGACCTGTGGTGCTCTGTAACCCATGGCCTTGGAAAAGATGCTTCCCTGAAAGGCTCAGGCTTCTAGGGCTTGCGTTTAAAATTTGAAAATCTCCATTGTAGTTCATGCTCCTATGATTGTATCAAGTGCTTTTACCCTCTGGGCAGAGGGATGGGTGTGGTTCCAGAATTGGTTTTTGTGGCTCAGTCTGCCGGTGGTTCTGACTGCACACACGGCCCACTCCGTCCCTCTCATTGCAG
Seq C2 exon
ACCTTGCTGCAGCACACACCTGAGCAGGAAGAAATGCGCTCCTTCCCAGGACCTCTCGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.905
Domain overlap (PFAM):
C1:
PF129322=Sec16=PU(33.0=70.8)
A:
NA
C2:
PF129322=Sec16=FE(19.4=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:
CCATCAAGACCGACCTCTCCT
R:
CGAGAGGTCCTGGGAAGGAG
Band lengths:
199-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]