GgaINT1024258 @ galGal4
Intron Retention
Gene
ENSGALG00000002626 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr17:7341482-7345719:+
Coord C1 exon
chr17:7341482-7341651
Coord A exon
chr17:7341652-7345589
Coord C2 exon
chr17:7345590-7345719
Length
3938 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
TTTCCATCTCCTCTTTGCAGCCC
3' ss Score
11.47
Exon sequences
Seq C1 exon
CTGTGCAGGAGGAGAGGCAGCGGGGGAAGGACCGCAACGAGAACGAGGTGGAGTCCACAAGTAGCGCCAACGAGGACATGCCCGTGGAGAAGATCCTGGAAGCAGAACTCGCTGTGGAGCCAAAGACAGAGACGTACATTGAGGCAAACATGGGCCTGACGCCGAGCTCG
Seq A exon
GTGAGGCACCTGTCCCTTGGTCCTGCTGCCCCATCCCTTGGTCCTGCTGTCCCTGCATGGGGACACAGCAGGGAGCTGGGGCTTGGTGTTGGCATGGCAGTAACCCAGCAGCCAGCCTGTATTCGGGTCAGGGCAAGGTTAGCCTGTGGGAACCGGAGCTCAGCAGTGCAGCTGCTAGGTGAGCTCAGGTGAAAGCCCAAGGAAAGCAAACCCCTCTGCCCAGTGCAACCAGTAGCACTGGTGCTCTGCTGCCTGGCGGCCATAGAGAATGGTGCTCCATCCACAGCTGCAGAGAGGAACAGACACTGCAAGGTGTAATTAGAAGGGCTCACGGAGATTTTGTTTTAGTTAACAGCCATTAGTGCTAAAAGCAGGAAGGCACTCCATGCTCTGAAGAGCTCGTAGTCCAATCAAGGCAGTAAACAGAGCTTTGTGGCTGAAGTGCAAAGAGATAAGAGCTGTAGAATTGGGGCGGGACTTTTTGGGCGCTGAATTACGCAGCTGGGAGGCTGTGAGAAGGGGAAGGCTGTAGAAGTTGGCTCTCACAGTCCCTTTCCCATTGGAAGCCTGCATTATAGCAGGGCCTGCTGGAAGCAGCAGGGCTCTCACAGGGCCTTGTGCAAACAGGAGAGAGCTGGCAGGAGGAGAGTAGAGAGTGAGAAGCTGTCAGAGGGAAACTGTCTTGGTGCTTTTTCTTAGAAAATTCCCTTATCAGCATCCTTGCTTTCAGAAAGCCTCACTGCAAAACAGCTGCCTCCAAATGTGAGAGCCAACCTATCCTCTGGAATTTGGTTTCTAGCACAGAGCCCTCGAAAAGAGCCTTATTGCAGAGCTGCACTCACGACCCAGCAGTTGGGATGCAGTGCTGATTCCTCAGTACCCTCAGTTCCCATGAAAGCAATGTTCCTCTAACTGTAGGGCACCTCCTGGCTGTCCAGACCTCCTTTAGGCTCCAGCTGGAGCTCTGGAGCACACAGCTGCCTCAGCCAGGACAGCAGGAACGTGTGCTGAAACATCCTTTTGCATCTATTATTGCTCTGCATGTGAGGACCTAATCTGGCAGGGTTTGGCAGGAGATTGTTAGGGGCCCACGGGATGCTCTCTTTAGCCTTAACCTACAAGGGTGCTTTGTGGCTTGCTAAGTGAAGCATAAAGCATCTTGCTTAGCTGATTCCTAAGTGAAACTCTTCAGAAGCTCCTTGAGCATGGCACTGCTGCCCCATAGCCAGGAGCTTGGCTGCAGGGAGCAGCGCTGCCATGGCCAGCAAGGGGCTGGGAGAGCTCTCAGGAGTGGAAATACTTGAGGGGAGTTGGAGACAGCATTGTGCTGGCTTGAAAACAAACCCCAGAGAGCAAGGTGAAATAAATGGGTTCGTCTGGCACTGCGTCTCCTCAGCCTCTTGTAGCAAATTGAAAGCCGGTTCCTGCATAATTCAACACGCATTACTGTGAACAAGGATGTGTGTTGCATCTAAATAGAAGCAGGAGGCTTGTTGAAATGCCCTGTTGTTTGTCGGGCTTCTGCCGATGAGGTGACATTTGTAGCAGGTTTAGTGGCTATATGAGATCAGCAGCGTGGTGATGGTGGGGGGGGGATGGAGGTGTCACCCTCCTCCTGTGCTCCACTGTGACACGGAGGCACAAATTCAGTCCTTAATAGATGCATGCAAGCTGTTGCCTTCAGCAAGGCAGGTTGGGTCCCTGTGTTTGTGCCTCGCACCTTGGCACATCTCTGAGCACTGCTGGAGGGGCAGCACCCAGGTGACACTCTGCTGGGTGCTCTCATGCTTGTGGCTGTCACCTTCCTGCCGCTGTCCCCTGGTGGCTGTGGGAGCAGAGGTGCCTTTGCTTTGCAGCCTGGCAGTGGTTTTATCCTCCAGCCATAGGGCTTCGGCACAGCTCTCGGAGCTGATTGAAGGGGAGGGCAGTGGGGGGAATGCTTGGCTCTGTCCCAGCACTTTGGTTAGCACCAGGGGAGGTGGGTGCAGTCGTGGTATGAAGCCCATGGTGGGGAGGGGTGGCTTTGCCTCTGCCCCTGCACCCCCTGGCAGCCTCAGCACTACCTTGGATGGGCTCCTGACTGCTGAAAGGCAAAGCCTGTAACTGAGAGGTTTTATCCCCCATGAGTTCTCAATCGGCCTCTAGCAGCTGGTTTCAAGTCACCATTTTCTAGAAGATGCCTCCAGGCTCTGGTTTTCCAGCAGGATCAGTTGCCCTCCTGTCCTTTCGTTCTGTCACACTCCGGCACTGTGCCCTTGCTATTTACTACAGGGGGGGATTTGCTTTCCATGCACGGGGACAGTTCTGAGCACTGCATCGCAGAGCCCTTCCTGGAGGTGAGGGGAGCCCTCTGGCCCATGGGGGGCGATGCCTTCAGCTGCTTCTCAGCATTAAGATTCTGCCAGGAAGCACCGTGGTGGTTCCAGGAAACGCGATGTGAGGCAGAATTAGCACCAAAAGCCAAGGGCAGATTGTGCTGCCTGCAGAGCAGCCGTGGTGCGTGCAACCTGCGGGAGCTGGGTGCTGGCATTCCCCAGGGAGTTATGACAATCACAGAAGTTGCGTTGGAAGGGACCACCTTAAAGCACATCCAGCCCCATCCCATGCCATGGGCTGCTTGCCCCAGACCAGATCAGGCTGCCCATAGCCCCATCCGTTCTGGTCTTGAGCACCTTCAGGGATGGGGCATTGCCTAAGCTCTCTCGAGCAGCCACCAGGGCTGGGGGGCCATCCCTATAATGCTCCCCCCTGACCCGTGGTGCTGAGCGCCAGCCCGTCCCCATCCATCTCTGTGAGCAACAGGTGAGAATACTTTGAAGGCGGGTGCTCCTGCTCCTGCCAGATGCTGGTTATTTTAAGCCTGGAGATGAGAGATGTTGGCCACTGAGACACAGAGGTGATGTTTGCTGCCAGGGGACGGCAGAGCCATCCGGGCAGGGGAACATAGGGATGGCTCTGGGCAGAATTGTAGGGCTTTTTCCTTTTCTCAGAGCAGCATTTCGCACCTCCCTTTGGTTTGTGAGCACTTGCTCGGCTCTGCAGTCAGCAAGGGAAGGGTTCTTTCCACAGTGTTTTATTCTCTGACCTTTTCCCTTTCGATCCCCTGGGGCCAAATGCATCCCTTATGGCGTGCCCACCTCCTGTTCGCTCCATGCAGCTGGGTAAGGGGCATGCACTGCATACAGAGAGTCCCACAGTGTGCTAGGCAGGTACCTCAAAATCCACAACATCGAGGGAATATGAGCAGAAGAGTGAGAAGTCAGCAGTGTGGGTGGCAGAAAGAAGGTGAAAAGGAGAGAAGGAAGGAGCACACCGTGGGGCAGAGATCTGTGCATGGGGCAGCTCCTGCCTTGGCTGCACAGAACCCGTGCCCCAGCCCCATGCAATCCGGAGGTGCAGCAAACACTCCTCCTCTGAGTTTGAAACTGTTCTTTTAAGGACATGGAAGAAAAATAATTGTACAGTCAAAGCTGCTAGGTATCAGTGGGGATTACAGCGGGATATGTGGAGGGGCTCATACATCCCTGTCCAGAGAGGTAAACCATATATACACACTTGTGCTGGCAGGGTCTGTCTTTGCTGGGGTTAGACGGTCTCTTCCCATTCCTAATCACAAACCCACTTGAGCTGTTAGCAGTTCCTTTAAACAGGGATTTGGTGTGTTTAGGCTGACTGTCCTCTTTGAGAGCAGATGGTTTGTGTTACTGGGTAATATTTCAAAGGAGAGGGCTTTTCTCCTTACTGGGATGCCCGCTCCACGCTGTGGGGTGCAGTGAGGAGGTGCTAGCACTGGGGATGTTCACACTGCAGGCTCCCTGCAGGTGATACCCACATAGATTGAGCTCCCAAACCTGGGGGGCAAGCAGGCAGCAACCCCTTCCCTCCTCCTCCCACCTTTCTCCTTGCTTCCTCCAAACCTTTCCATCTCCTCTTTGCAG
Seq C2 exon
CCCAACGACCCGGTGACGAACATTTGCCAGGCGGCCGACAAGCAGCTCTTCACCTTGGTGGAGTGGGCCAAGAGGATCCCCCATTTCTCAGAGCTGCCCCTGGATGACCAGGTCATCCTGCTGCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002626:ENSGALT00000004139:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.561 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(3.7=12.3)
A:
NA
C2:
PF0010425=Hormone_recep=FE(22.6=100)
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]