DreINT0106111 @ danRer10
Intron Retention
Gene
ENSDARG00000045904 | nr2e3
Description
nuclear receptor subfamily 2, group E, member 3 [Source:ZFIN;Acc:ZDB-GENE-041114-63]
Coordinates
chr25:22177862-22178321:+
Coord C1 exon
chr25:22177862-22177965
Coord A exon
chr25:22177966-22178048
Coord C2 exon
chr25:22178049-22178321
Length
83 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GTTCCGTTCAATCTTCTCAGCTG
3' ss Score
7.03
Exon sequences
Seq C1 exon
ATGTCAGGCTGGTACAGGCATGTGTCCTGTGGATAAAGCCCATCGAAATCAGTGCCAGGCCTGTCGCTTAAAGAAATGCCTTCAAGCTGGAATGAACAAGGATG
Seq A exon
GTGAGTCAACTTCTTGTAGTGTTTCTTGTAGTTTCTGCCCTTATTGTCTTCACTTTCTTAACCGTTCCGTTCAATCTTCTCAG
Seq C2 exon
CTGTTCAGAATGAACGTCAGCCCCGCAGCACTGCACAAGTCAGATTAGATGCATTGGATGTGGACAAGGACAAGGAGCACCTCGCCACAACCTTGGAGCCCACCTCCTCATCCACCTGCTCTGTCATCAGCCGCCCACTGCTGGGCTCCTCCATCAGCTCCAGCATCAGCTCCACAGATGGTAGCCAACACTCCAACAGTCCCAAAAATGGACACCGCTTTATGGCCAGTCTGATGACAGCTGAGACTTGCGCAAAGCTGGAACCAGAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045904:ENSDART00000127099:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.587
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(46.5=91.7)
A:
NA
C2:
NO
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:
GTACAGGCATGTGTCCTGTGG
R:
GTGCTCCTTGTCCTTGTCCAC
Band lengths:
173-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]