GgaINT0027529 @ galGal4
Intron Retention
Gene
ENSGALG00000002093 | NR2E3
Description
photoreceptor-specific nuclear receptor [Source:RefSeq peptide;Acc:NP_989925]
Coordinates
chr10:898303-898885:+
Coord C1 exon
chr10:898303-898484
Coord A exon
chr10:898485-898653
Coord C2 exon
chr10:898654-898885
Length
169 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TGGGTTCTGGCTGCCCCCAGGTG
3' ss Score
10.23
Exon sequences
Seq C1 exon
TTGATGAGACAGTGGATGTGACGGGTGGTGAGCCCGAGCGGGCAGGCAGTGAGTACCAGGTGGCCCCATACCCAGCAGCTGGTCCTGAAAACGTCTACGAGACCTCAGCACGCCTTCTCTTCATGGCTGTCAAGTGGGCAAAGAACCTGCCTGTCTTCTCCAATCTGCCCTTCCGGGACCAG
Seq A exon
GTAGGGACCCCAAAAGCTCTAGGTTGGGATGAGGACACTTGGAGCCTCTGCATGACCATAGGGTGAACCTTGAGGTGTCCCCAGGATGCCACTTTCTGGCCATGGGGTGAACCGTGGGCAATGTTCCTCTGCCCACCCAGGTGGGCTGATGGGTTCTGGCTGCCCCCAG
Seq C2 exon
GTGATCCTGCTGGAGGAGGCGTGGAGCGAGCTGTTCCTGCTCTGTGCCATCCAGTGGTCCATGCCCCTGGAGAGCTGCCCGCTGCTGGCCGTCCCCGAGCCATCCCCTGGCAAGCTGCTGCCAGCCGCCGTGGACGTGCGGGCGCTGCAGGAGACCCTGGGGCGCTTCAAGGCATTGGCTGTCGATCCCACCGAATTTGCCTGCATGAAGGCTGTGGTGCTCTTCAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002093:ENSGALT00000003264:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(24.5=80.3)
A:
NA
C2:
PF0010425=Hormone_recep=FE(38.5=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:
GCCTGTCTTCTCCAATCTGCC
R:
AAGAGCACCACAGCCTTCATG
Band lengths:
258-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]