GgaINT0038630 @ galGal4
Intron Retention
Gene
ENSGALG00000003406 | RXRG
Description
retinoic acid receptor RXR-gamma [Source:RefSeq peptide;Acc:NP_990625]
Coordinates
chr8:5132869-5134397:+
Coord C1 exon
chr8:5132869-5132881
Coord A exon
chr8:5132882-5134236
Coord C2 exon
chr8:5134237-5134397
Length
1355 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAC
5' ss Score
7.56
3' ss Seq
GCTGCTTTTTTGTCCCTTAGCCG
3' ss Score
6.52
Exon sequences
Seq C1 exon
ATGAAGAGGGAAG
Seq A exon
GTACACGCTTGGCTCGGAGACTTCTTCTTTAGCCCATTCCCCATAGCGCGGTCAGTGCCGCGCTGCCCCAAGCACCGAGGGAAGAGGGGGGTTGTATAAGACCAGGCTTGATTCAAAACCCAATCTCAGGCTCAGCTCTCCCTTCCTGCCGGGTGCAAAGTGGTTTGGAGGACCGCGGAGTCGATGCGACTTTCCTTCATAGAGCGTGAAAATGCAAACCCCAGGCTGCTGGGGGGCAGTGTGAGGACAAACCTGTGCTGGGAGCGTGTAACATCCTCCCCCCAGCAGCAGTTACCTAACTGAGAATATGAGGATGGAGCTCCCAGGCAGCCTTAGGGCTTGTTGGAGCCTTGCAGAGCGGGTCCCTTCCTCAGCATCCTCTGTCCTCCTCCCATGGGACTTTTATCCCCTTGTTTTCAGGGAGATGACTTCCCCACTCCAACCGCTGAGCGCTCAAAGGGGGGGGAAAGGGGCCGGCTTTGCACCCGGCTTCTCCTCAGTGAACCTTTATCACTCCATGTGTATAAATGCCCACAGCTCATTACCCGTGACCAGCCCAGCCCCCAACCTTTCCTTCAGGGCTTACGCTGCATTTTGGTACCCTGGATGGTGCTGTGTGGTCATAGTGGGGCAGTGATGCTGGCTAGCGGGGCTGCTCTGCTCTTTTGGGACTCTTCTCCCTAACAATGAGCTAAACTGATGTGACACCTGCTGGTCACTTGCCTTTCTTTTCTCCTGAAGCAGGATTTCCTTATGGGATTGCCGATACAAAGTTGTGCGCCCAGGACCTGCTATGGGCATAAGACTTGGCAGGCTGTGTGTTCATGTCCTACATTGACCTGTCCTCCACACACCCAGCAGCCCTGGGGGTGAATAACTGATATTTCACCCATCAGCAGATATCTTGGGAAATGGTAGAAGAGTGGGAGAGCTCCAAGCTTGCAGCAGGAGGAGCTCCTTGCGTCGATCCGTGCCCTTATAGATGCGGAGGCCCCAGCTTGGCTCAGGAATTGGGCATGCAGCAAACCTTAGTGGCTGGGAGATGAGGTCCCTCCAGCAGCTGGTGACCACCGAGCCCAGGCTGCCACCTGGAGGCATTGCCTTCTCCTTCCCCTCTGCTGGAGTTTGGAGGTCAGCACTTTTCCTCGAGTTTGGAGACCACCAATCTGCAGCAACCCCGAAGTTATTGGGGGGGTGGATGAGGACGGAGTGGTGATGGCGCTTTGGTTGGACCTGCAGCAGAAGTATCTGTTGATTTTTCTCCCTACCGAGAGAGAGTTCCTCAACCAAGAGGAAAGGAGATGCTCGGCAATGAGTGCTGCCTGGGTGTAAAGAGCTGCTTTTTTGTCCCTTAG
Seq C2 exon
CCGTGCAGGAGGAGAGGCAGCGGAGCAGGGAGCGCAGTGAGAACGAAGCTGAGTCCACGAGCGGCGGCAGCGAGGACATGCCTGTGGAGAGGATCCTGGAAGCCGAGCTGGCAGTCGAACCCAAGACGGAGGCATACAGCGACGTGAACACGGAGAGCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003406:ENSGALT00000005387:5
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=0.593
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(2.9=40.0)
A:
NA
C2:
PF0010425=Hormone_recep=PU(6.2=22.2)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]