RnoINT0132305 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3875725-3876605:-
Coord C1 exon
chr3:3876431-3876605
Coord A exon
chr3:3875868-3876430
Coord C2 exon
chr3:3875725-3875867
Length
563 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
CCTATTTTATTTAAATTCAGTTC
3' ss Score
5.37
Exon sequences
Seq C1 exon
AGTCAGATTTACAGAAGCCACCATGTGACTGGCGGTTCCTTTGAGGCCCCCCATGCCCCAGGCTCATTTCATGGTGATTATGCCTATGGTACCTATGCCAGCAATTTCAGCGGTGCCCATGGTTTTCCAGAGTACAGCTACCCTGCAGACACCTCCTGGCCTGCTGCGGAGCAAG
Seq A exon
GTGCGTTCTCAGCAGTTGAGCGTGCAGCCACCAGGTTGGGGTAGAACAGTAGAGCAGTCAGCTCCTCTCTGCACTCTGCGCTCACTGTCCTGGACGCCATGGCTTGTTGGTACAGGCCGACATTGACCCTTGGATTGACATTTGTCTCAGGGCCTAAGAGCTGTCTGCTTGCCCAGCGTGCATTGTTAATGGGTAATTTTGATTCCAGTGTCCTTTCCAGTCAAGCCTTGGGTGTCTCTTCTCTATGTTCTCACACTGGCTATGTGGGTGAGCGCTCTTGGATCTCCTCTCAGTTCCCCTGAGAGACTCTTGCTCTGATTTGTGCCAGTGTCCCATTCTGACTCTCTCCTGAGTCTTCACCTCCTAAAGTGTCACTGAGAGCTCTCCTGAGTGAAGTATTGGTTAGCATTAGAAACCACTTTTGTGTGTGAACTGCTCAGCTTGTTTGCTCTGTGATAGTCTGAGATAGGCAGGCAGGAAGCCTGAGCTGGGAATCTGTTCTAGACGCTGTGAGACACGACCAGCCAGCTCAGTGCTTCTCTTCCTATTTTATTTAAATTCAG
Seq C2 exon
TTCCATCAAGACCGACCTCTCCTGAGAAGTTTACAGTGCCTCACGTCTGTGCCAGGTTTGGTCCTGGTGGTCAGCTCCTCAAAGTGATACCCAACCTGCCTTCAGAAGGACAGCCCGCATTGGTGGAGATCCACAGCTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.525 A=NA C2=0.375
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.0=70.8)
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:
AGTCAGATTTACAGAAGCCACCA
R:
GATCTCCACCAATGCGGGC
Band lengths:
306-869
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]