Special

RnoINT0132284 @ rn6

Intron Retention

Gene
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
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]