GgaINT0027525 @ galGal4
Intron Retention
Gene
ENSGALG00000002093 | NR2E3
Description
photoreceptor-specific nuclear receptor [Source:RefSeq peptide;Acc:NP_989925]
Coordinates
chr10:897206-897903:+
Coord C1 exon
chr10:897206-897356
Coord A exon
chr10:897357-897799
Coord C2 exon
chr10:897800-897903
Length
443 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
GGTATCACCTCTCCCCGCAGGTG
3' ss Score
10.62
Exon sequences
Seq C1 exon
GACTGAACCCAGCCCCTGGCAAGGCACTGAGCCCCGTACTGCTGTGCAAGGTGTGCGGGGACACCAGCAGTGGGAAGCACTACGGCATCTATGCCTGCAATGGCTGCAGTGGCTTCTTCAAGCGCAGCGTCCGCAGGAAGCTCATCTACAG
Seq A exon
GTGGGGATGGGGGACAGCCAGCTGGTGGGGACCCAGGGGATGGACACCGGGTGGGACAAAGGTGGTGGATACAGGGAGGGACATGGCATTCATTGGGGCAGGACACCCATCAAGGGAGGGTGTTCACTGGGACACAGCACCTGTATGGGACAAGGCACCTATAGGGGATGAGGGCACCCAGAGGGGATGTGCATCTGCAGGGGACAAAACATCCCTGGGACAAACAAGGCATTTGTTGGGGCAGGACACTCATGGTGACAACTGACCCATAGGGACAAGGCATCCATAGGGGCAGGATATTCACTTGGGCAGGGCACCCACTGGGTGAAGGCCACCCAGCAGGGACAAAGCCTCCCCGGCACAGGGCATCCATGGGCCATGGGACACCCCGGGGGAACAGGGCCATCCCTGTGGGTGCAGCCAGGTATCACCTCTCCCCGCAG
Seq C2 exon
GTGCCAGGCAGGGACGGGGCTGTGCCCAGTGGACAAGGCACACCGCAACCAGTGCCAGGCATGCCGGCTCAAGAAGTGCCTGCAAGCCGGCATGAACAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002093:ENSGALT00000003264:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 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
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTGAACCCAGCCCCTG
R:
ATCCTTGTTCATGCCGGCTTG
Band lengths:
254-697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]