GgaINT1024255 @ galGal4
Intron Retention
Gene
ENSGALG00000002626 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr17:7329908-7333949:+
Coord C1 exon
chr17:7329908-7330179
Coord A exon
chr17:7330180-7333798
Coord C2 exon
chr17:7333799-7333949
Length
3619 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCCTGCTTGTGTTCTTGCAGCTC
3' ss Score
11.15
Exon sequences
Seq C1 exon
TTCCAGATTTCTCAAACCAAGTCAATTCCACATCCCTGAACTCCCCGACGAGCCGAGGCCCCATGGCCACCCCATCCCTGCACCCGTCCATCGGGCCGGGCATCGGCTCCTCGCTGGGCTCCCCGGGCCAGCTGCACTCACCCATCAGCACCCTGAGCTCACCCATCAATGGCATGGGGCCACCCTTCTCCGTCATCAGCTCCCCCATGGGCCCACACTCGATGTCTGTCCCCTCCACGCCCAGCCTGGGATTCGGCACCAGCAGCCCACAG
Seq A exon
GTGAGGGGAGGGCGGCAGGGATGTCGCTGCTGCTTTGATGGGACAGAGACGTGGTTTTGGGGTTCGATCCGGACCCACTTCTGGTTACGCTCTGCCAGGTTCTGAGGAGTGAAACCCCACTGCAGATAGCACAGGGAGCAAAACCCCATTGCAGACAGCACGGAGACGTAGGCAGGCGCCACAGGGTGGCAAAAAGCAGAACCCGAAGGGGGAAATGAAGCCCGAGGCTTCCTGCTGCTCCGGCGTCATACGGGGGACCGCTGGGGCGCAGAGTGGGACCACAGCCGTCCATCAGCTGTCCCCTCCCTGCCCACTGCCCCTCTTTCCCTTTGCAGAGGGAGGAACTGGTATTGGTTTGCTGAAGATTATGTAAAAAAAAACTCCAACCAGCAAGAGATAAGCTCTTTTTAAAAATAGCAAGATCGGGGAGAGCTGGCCAGCCCCTGCCACCTGTTGCTGGCTGCTTGCACGATATATGTTTAGTAAAAGGGCAGATTAAGGAATTGGCTACCACCTGCCACTCAGTGCCGGTTTATTTATCCCAAGCCCTCGCTGGGAGTCAAGCACCTGCCAGCACCTTTATTTTTAAATATTGGCCTGATTTATTTCCAGCAATAACGGGGTCTTTTTGCCCTGGCTGGGGAGGGACGTGCCGTGTGGACGCCGTCAGCCATCCCCGATGGAGAGGCAATGGGAGAGGCAGCGGTAGGGTTTGCCACTGCTCCTGTAGGTTCATGGGGAGCTCTCTGTGCCGCCTCCTATCCCACGGCAAAGGGAAGGGGAACTGAAATAGTGCCTTGGAATGGGCAGTGCCAGCTCTGAAGTGGTGGGGAAGGAGTGGGAAGCAAAGTGGGGGTGAGCCGCCAGCAGGGGGGGGAGGGAACGAGGAAACTGCTGCTAGGCACAATGCGGTGTAGGAGCTGAAGGAACCGAAATAAAACCCAACCACAGGGCAAAAACGGGAACCGAGAGCGTGGTCAGATGGTGCTGGGGAGCGAGCTGGCGGCACGGCGTCTCCCAGCCCTGGCGGCACAGTGCCGGCACCACCGCTCGCACACGGACGTGTCTTAAGTGGTTTTCCTCCAGGAGATGGCGAGGAGGTTTCCAGCCTAATGGCTCCTGCCATCTGTCCCCTGTCTGGGCGCATTAGGGCCCTGGCCCTGCAGCAGGCACCTACCTGGGCCTGCATAGGAGTGCAGGAGGAGGAGGAAGAAGAGGAGGGAGTGCAGTCCCCCCATCGTGCACCGGCCGGCGAAGCGCCGGGGGTAATGAGGCGTGCGGCCCCAGCCGCCGGGTGGGGATCGCCCTGATGGAAGGTGGTTTGCATCAGATGGCAGATGCCACTTGCCATCAGGCCATGCCTCATTGCCTCTGGAAAGGCAACAGAGCAGAAGGGTGTGGGGCGGCCGCGCCGGGGTGGGACGGAGATGTCAGCTCCCAAAATCCCGGCTGCGTTCACTCTGCTGTTTCTTCCCATGCAAGCTCTGACCCAGCTCCTCCCAGCCCGAGCTTTGCCAAAAGACATCAGCCCTGACCTCGAGCATCTCCTCCTGCCTGGGATCTCACGCAGCCTGCAGACTCAGCTTGGCTCCCAGGGGGCTGCTGGGGACCCCGTGGGGAGGGGGCACAAACACTGAGCTGGGCATGAGCTGGCAGAGAGCCCGAGCAGTGTGAGCAAAGTCCCAGCCCGACCAGAGGGCCGTTTGCTGGGATTTAGTGCATGTTTAAGCCCTCTTACCTAAAATTGCTGGGAAAACAAGAAAAGCGTAATTTTCTGTAAGAGATGGAAGGGATGGACTTCCAATGCTGGAGGCTTCTTCCTCCCTCCTGCTCTGTGCTGCCCCAGGCATTGCTGGCAGCAGCTGGGGGTGTCTGGGGGCATGGATCAGGAGCAGGATTAGGTGCTTCCAGAGCCTTTACACGATGCTTTGTGGGTCTGGGCACGTTATAGATGGAAAAAGAGGAAAGCTCTGGTTGCCATTAGACCAAAGGGGATTTGATCCCTCGGGCAATGAACTAAAAAGGGAAAAGAGAGGAGCCGAGGAGTCCCGGCTCATGGGGCTGCCGCGTCATTGGGGAAGCAGAGCAGCAGTTCTGTGTCCCTGCTCCGTGCTGTGCTGGGTGCGCTCCCATGGCACGTGCTCCCGGCTCTAGGCCAGCCATAGGGGGAAGGAGTGGGGCTGGCGCCAGGGCGGTGTGGGAACCTCATAGCACACGTGGGGCTGGGGCTGCAGGAGGAACTGGTGACTTCTCCCATCCCGGGGCTGACTCAGCTCCAGCAGGGCTGAGTCGTGGGGGCAGTGGCACCCCATGTCCTGGTACCCTCCAGAAGGAGGATGCTCACGTGCTTCTCACGTGGAGTTTGGGGGCTGCGGGTGCTTGGTGGTGAAAAGCTTATTTTAGCAGATATCTGAAGTCCTCTGCCCCACCTTGGTGATTGGCTCCAAGAAGTATTCTGGGGGTGCTGCTAGAGCCAGTGACCTCAAAGCCATGTGCTGTGCAGCACTGTGTGGCTCATGCCTTTCTCCCTGGTGCTGCGTCACATCCCCAAGGGATGCTCCTGCTGCATCCCTGCTCACCGGGTTGGGTTTGCCTCTCTGTGTGCTGTGGTTATCAGCCCTCTGCCTGCCAAGTATTCCCACCAGCTCAGATGCTTGAAAGGCAGAGGAGTGGCTGTGGTCTTCTAATGGACAGAACACGAGCCCCGGGACTTCCCTGAATTAATCTGTGACAAGTGTAATTGCCCAGTGTCTCTATTAAGGAAGAGAAAGACAACAAGCCAAGACACAAATCCTGTCTGTCCCGCTTGGTTTTAGCAGTTGGGAGGAGCTGCAGAAGCCTGGCTGTCCATACAGAGCCCCATAATACCTGCCCTGGGCCGGGCTTTGGTCCCCATGGGGTCCCTCCTGCATCCCTGTCCCCTCTCAATGGGACTGTGCGGGAGGGCACAGTGACACCAGCACAGAGCATTTTGCAGAGGGGTCTTTCTGATGACATTGAGCATAAAATCATGTTGCAGAGAAAATCCCTGAGGCCCTGAAGGCGTGGATGGCTGCTGCAATGGGGCCAGCAGCCTGCAACCTGCAGGACAGGGCTGCAGCTCTGTCCTCACACCTTTCCTTCACACTTCAATGGGTTATTTGGGCTCTGCAGCCATGGGCGGGGTAGCAGAGCACAGGCTGCTGTGAGCTTGTTTCCACTGCCAGGACTGAGCTTGTCTCAGAGCTCCGTGCCTCAGTTTCCCTCTGTGCAGGACGGGAGCACCGTCCTGTCCTGCCAGGAATGTGGAAATCAAGTCAGGAATGTTGCAGTGAAATCCCAGAGCTGCTGACGGGGCCATGCCAGCCCCTCTGTTCCAGCTTTCTTTGCTTTGTTTCCCAATTCTTTTGGGCTCTGCTGAAGGCTGTGAATGGCAGGGAAGCATCCCACACCTGCAGCTCTGCAAAGCCAGGCCTTGTTGTACCTGGCTCCCTGACCATTGGGCTCAGGTGCCCACATCCTCCTCTGGGCTCAGCACTGTGGGTTTTAAGCTGTTTGTCCCATTTGAGGCTTGTCCCCTGTTCCATACATTTTCCTGCCTGTACCCAATCCCATGTGCTCCCTGCTTGTGTTCTTGCAG
Seq C2 exon
CTCAACTCACCCATGAACCCCGTCAGCAGCTCAGAAGACATCAAGCCACCCCTGGGGCTCAATGGAGTCCTCAAAGTGCCAGCACATCCCTCAGGAACAATGGCCTCCTTCACCAAGCACATATGTGCCATCTGCGGGGACAGATCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002626:ENSGALT00000004139:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.945 A=NA C2=0.490
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PU(69.8=89.0)
A:
NA
C2:
PF118253=Nuc_recep-AF1=PD(28.4=64.7),PF0010513=zf-C4=PU(15.7=21.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]