GgaINT0038633 @ galGal4
Intron Retention
Gene
ENSGALG00000003406 | RXRG
Description
retinoic acid receptor RXR-gamma [Source:RefSeq peptide;Acc:NP_990625]
Coordinates
chr8:5135194-5136169:+
Coord C1 exon
chr8:5135194-5135326
Coord A exon
chr8:5135327-5136077
Coord C2 exon
chr8:5136078-5136169
Length
751 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CTCGTGTCCCCCACAAGCAGAGT
3' ss Score
4.27
Exon sequences
Seq C1 exon
GCTGGAACGAGCTGCTCATCGCATCCTTCTCCCATCGCTCCGTGTCGGTGCAGGATGGCATCCTGCTGGCCACAGGCTTGCATGTGCACCGCAGCAGTGCTCACAGTGCAGGCGTGGGCTCCATCTTTGACAG
Seq A exon
GTATGTGGCCAGCTTATCATCCCAAGCAACAGAGCCTGATCAGCTCTCTCCACACTAAGAGGGAACCAGTGATCCCTTCCAACTCGGGATATTCTACTGTTCTATGGAGAGCTAGAGCAAACCCATGATGATCTGGGGTAGAATTAGGGGACGTGGGGCTGGCTTAAGAAAAACACAATCGAGTGTGATGAAAACACCTTGAAAGGGATTTGCAGCTGCAGAAGCATCTCTGTGGGTGGTTGTGTTTGTGCAGGGGGAGGCTGCTTCTCTGCCCTCCCCTGGAAGCTTTTACCTTAACTGGATCTAGAGCTAATACTGATCAGCAGAGCCTTAGCTAGCAGAGCCTTAAGCCCCAGCTTGCAGTTTCTGCTCATGTAAGAGCCACATCTGTACTGTCTGTGCCACGTCTGCTCCCAGCCCAGCAGGATGTGGTGTCGCCATCCTTACAGAAGTGACGTGCAGAGTGCAATGTGGAGGAACACCCATGTGGTTTTCCTCAAACACAAACTGTTCCTCGTAATGCCAGCAGAGCGCAGAGCCCACGTGCAGACCAGAGCGAGAATGGAAGTAAACTGAATGCTCCTGCCCCTGGGTGCTGCTGGTGCTCATAGAAAGGAGTGATGTGTGGCATGGCTGTCCCTTACAGCTGCCTCTCCCTGCAGAGAGGGGCTGGGGGGATTCCCAGTGCCCATCCCGGGTGATTTCAGCCCCCGTTTCTGACCGTCTGCCCACTCGTGTCCCCCACAAGCAG
Seq C2 exon
AGTTTTGACAGAGCTGGTGTCCAAAATGAAGGACATGCAGATGGATAAGTCGGAGCTGGGGTGCCTGCGAGCCATTGTCCTCTTCAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003406:ENSGALT00000005387:8
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=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(22.6=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(15.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAACGAGCTGCTCATCG
R:
TGGGTTGAAGAGGACAATGGC
Band lengths:
223-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]