RnoINT0132285 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3871887-3872301:-
Coord C1 exon
chr3:3872190-3872301
Coord A exon
chr3:3871993-3872189
Coord C2 exon
chr3:3871887-3871992
Length
197 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTAATTCACTTCTTCCACAGTTT
3' ss Score
6.75
Exon sequences
Seq C1 exon
CATCAAAAGGCCTGCTGGATGCCGCACATTTTTGCTACCTCATGGCCCAGGTTGGATTTGGGGTTTATACAAAGAAAACTACCAAACTTGTTTTGATAGGCTCAAATCACAG
Seq A exon
GTAAGGAATCAAGTCGAGATAGCAGGATCCATTTTCCTCTAAGAAGCAAATGACCCCCGTTTCTTCAGTTAATCCGGAATGGCCAGCCTTGCAGCTTTGCTACATGATGGGGCGTACTTGGGTTTACTTGCTTTGAGATTTATGGTGCCAGTGTTGGCCACTTTTCAAAGTGAGTGAGTAATTCACTTCTTCCACAG
Seq C2 exon
TTTGCCATTTTTAAAGTTTGCCACTAATGAAGCCATTCAAAGGACGGAGGCTTATGAGTACGCTCAGTCCCTTGGGGCGCATACCTGTTCCTTACCTAACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:15
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(14.0=100)
A:
NA
C2:
PF129312=Sec16_C=FE(13.2=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:
CATCAAAAGGCCTGCTGGATG
R:
CTGGAAGTTAGGTAAGGAACAGGT
Band lengths:
218-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]