RnoINT0102967 @ rn6
Intron Retention
Gene
ENSRNOG00000050690 | Nr2e3
Description
nuclear receptor subfamily 2, group E, member 3 [Source:RGD Symbol;Acc:2318602]
Coordinates
chr8:64799750-64800467:-
Coord C1 exon
chr8:64800371-64800467
Coord A exon
chr8:64799877-64800370
Coord C2 exon
chr8:64799750-64799876
Length
494 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AGCTCTGCCTCCCTGCTCAGGTG
3' ss Score
9.32
Exon sequences
Seq C1 exon
ATGAGCTCTACAGTGTCTGCCTCCGTTGTGCCCATGGCTGTGACGGCCTCCAAGAAGGAGTCTCCAGGTAGATGGGGCCTCGGAGAGGATCCGACAG
Seq A exon
GTATGATTTTTTTCTGGAGGTGAGGTCTGGGCTCTTGGGGAAGAGCGTACAAGCAGCAGGTTCAGGGAGCCAGGAGCGAGCTGGAGCCAGGTATCCCCAGCCCCAGGGCCGTGAGCAAGCAAGAGGGTCTGCTAACAACCCAGAAGTCCTAGAAACTCAGAGGTCAGCAGAGCAGGACCCAACAATGGAGCTGCCGAGGAAGGAGATGGGTGCTCTTGAGACACCAAGAGATCCTCGTGGCACATCTCGTAAGAGGCTGCAGCCACCCACAGGAGAGGAATGGAGCCGGGAAGGTGGAGGCAGCGTGGAGGGAGCACGGAGGGAGGAGCGAGGGGAAGGGGTGGGAGCGGAGGTTAGGATGTCATGGTGAGGAGGCTGCTGTTTCCGGTAGGTGTAGCTAGCTTGGGGAATGTGGGAACCTACGGACCTGGAAGAAGAGTGACTAGGGGAGGGAGTGTGCTGTCCTCTCAGTCCAGCTCTGCCTCCCTGCTCAG
Seq C2 exon
GTGTGGGTCCCTCGCTCCAGTGCCGAGTGTGTGGGGACAGCAGCAGTGGGAAGCACTATGGCATCTATGCCTGCAATGGCTGCAGCGGCTTCTTCAAGAGGAGTGTGAGACGGAGGCTCATCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050690:ENSRNOT00000073122:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=PU(52.1=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCTCTACAGTGTCTGCCT
R:
TGTAGATGAGCCTCCGTCTCA
Band lengths:
222-716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]