GgaINT0027530 @ galGal4
Intron Retention
Gene
ENSGALG00000002093 | NR2E3
Description
photoreceptor-specific nuclear receptor [Source:RefSeq peptide;Acc:NP_989925]
Coordinates
chr10:898654-899059:+
Coord C1 exon
chr10:898654-898885
Coord A exon
chr10:898886-898953
Coord C2 exon
chr10:898954-899059
Length
68 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AACACCCGCTGTCCTGGCAGAGA
3' ss Score
7.61
Exon sequences
Seq C1 exon
GTGATCCTGCTGGAGGAGGCGTGGAGCGAGCTGTTCCTGCTCTGTGCCATCCAGTGGTCCATGCCCCTGGAGAGCTGCCCGCTGCTGGCCGTCCCCGAGCCATCCCCTGGCAAGCTGCTGCCAGCCGCCGTGGACGTGCGGGCGCTGCAGGAGACCCTGGGGCGCTTCAAGGCATTGGCTGTCGATCCCACCGAATTTGCCTGCATGAAGGCTGTGGTGCTCTTCAAGCCAG
Seq A exon
GTGAGAGCGCACACCCAGGTCCTCCATTGCCTGTCCCCGTGTCACCCCAACACCCGCTGTCCTGGCAG
Seq C2 exon
AGACTCGCGGCCTGAAGGACCCCGAGCAGGTGGAGAACCTGCAGGACCAGTCGCAGGTGATGCTGGGCCAGCACAACCGCTCCCACTACCCCGGGCAGCCCGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002093:ENSGALT00000003264:6
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=0.194
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(38.5=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(17.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCCCCTGGCAAGCTGC
R:
CTGGTCCTGCAGGTTCTCCA
Band lengths:
182-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]