DreINT0106114 @ danRer10
Intron Retention
Gene
ENSDARG00000045904 | nr2e3
Description
nuclear receptor subfamily 2, group E, member 3 [Source:ZFIN;Acc:ZDB-GENE-041114-63]
Coordinates
chr25:22179942-22180396:+
Coord C1 exon
chr25:22179942-22180182
Coord A exon
chr25:22180183-22180290
Coord C2 exon
chr25:22180291-22180396
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
ATTAAGTTATTCTGTTACAGAAA
3' ss Score
5.37
Exon sequences
Seq C1 exon
GTGATTCTGCTTGAGGAAGCATGGAGCGAGCTGTTTCTTCTATGTGCAATTCAGTGGTCTCTACCTCTGGACAACTGCCCTCTGCTGTCTCTGCCTGACCTCTCACCCACAGGACAGGGAAAGGGAAGCCCCTCTGCCTCAGATGTGAGGGTTCTGCAAGAGGTGTTTAGCCGGTTCAAGCCCTTGCAAGTGGATCCAACCGAGTTTGCCTGCTTGAAAGCCATTGTTTTGTTCAAACCAG
Seq A exon
GTACATTTTGGCTTCTTTTTACCACAAGGGGGCATAAGTGATGGCATCCAGTACATGGCTAAACTAGCCTGGAATAGATATTATTTTAATTAAGTTATTCTGTTACAG
Seq C2 exon
AAACACGAGGACTTAAAGACCCCGAACAGGTAGAGAACCTACAAGATCAGTCCCAAGTACTGCTTGCTCAACATATTCACACACTTTACCCCAGTCAAGTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045904:ENSDART00000127099:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.083
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(39.6=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(17.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATGGAGCGAGCTGTTTCTT
R:
CGGGGTCTTTAAGTCCTCGTG
Band lengths:
247-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]