DreINT0106110 @ danRer10
Intron Retention
Gene
ENSDARG00000045904 | nr2e3
Description
nuclear receptor subfamily 2, group E, member 3 [Source:ZFIN;Acc:ZDB-GENE-041114-63]
Coordinates
chr25:22177623-22177965:+
Coord C1 exon
chr25:22177623-22177773
Coord A exon
chr25:22177774-22177861
Coord C2 exon
chr25:22177862-22177965
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTGTTATTGAACAATTGCAGATG
3' ss Score
6.95
Exon sequences
Seq C1 exon
GTAAAAGCCCAGCTCCTGGAAAGGTCCTGAACACGGGACTTCTTTGTAAAGTGTGTTCTGACACCAGCAGTGGGAAACACTATGGAATATACGCTTGCAACGGTTGCAGTGGCTTTTTCAAGCGCAGTGTGAGGCGCAGACTCATCTACAG
Seq A exon
GTGAGAAAACAACTTGCGTATTCAAAGTTAGAAGCAAGGTAGAAAATTCTGTGCAATAAATTAATATTTTGTTATTGAACAATTGCAG
Seq C2 exon
ATGTCAGGCTGGTACAGGCATGTGTCCTGTGGATAAAGCCCATCGAAATCAGTGCCAGGCCTGTCGCTTAAAGAAATGCCTTCAAGCTGGAATGAACAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045904:ENSDART00000127099:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.098 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PU(52.1=72.5)
A:
NA
C2:
PF0010513=zf-C4=PD(46.5=91.7)
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:
CTGGAAAGGTCCTGAACACGG
R:
CACAGGACACATGCCTGTACC
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]