GgaINT1024259 @ galGal4
Intron Retention
Gene
ENSGALG00000002626 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr17:7345590-7348145:+
Coord C1 exon
chr17:7345590-7345719
Coord A exon
chr17:7345720-7348012
Coord C2 exon
chr17:7348013-7348145
Length
2293 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCCTGTTGTTTTCTCTGCAGGGT
3' ss Score
11.3
Exon sequences
Seq C1 exon
CCCAACGACCCGGTGACGAACATTTGCCAGGCGGCCGACAAGCAGCTCTTCACCTTGGTGGAGTGGGCCAAGAGGATCCCCCATTTCTCAGAGCTGCCCCTGGATGACCAGGTCATCCTGCTGCGAGCAG
Seq A exon
GTGAGCCCCAATGCGCTGCATCCCTCCGTGGTCACGCTGGGATTTGGGTGCTGGCAACTGGAGAGCCTTTAGCTGCTTCTGAGGAATAGCTTCAGATCGTTCAGTTGCTAACTAGGATTGAAAAAGCCCCAAGGGACGTGTTGCTGAATGGGATCCAGAACATTGCACCAGCTGCCAGTGGGCTGAAAAATGGCCCAGCCTTGTGTGTGATGAACGAGATGCTCAGGAAATCAAGGGCACGATGCGCCAGCATCCTCCTGAGCCGGGCCTGGAAAGACAAGGGGGTTTGGGTCTGTATGAAATGTCATAGAGCTGCGATGTTTGATGATAATTAAAAGCAGACAGGGGAGAAAAAATATATATCGCCTTCCCTCTCCCACCCACCAAGATGAAAATGAAGTTCTTTGGGTTTATTTTAAATTTCCTTATGCTGCGGGGGGTTTGGAAGAGCGGGGGCTCTGGGAGGTTACAGGCAGTTAGCTGGGAAGGAGGTCTTCTTCCAGCAAGTAAACTCAAGCCTCAGCTGCTGGCAGGTCCTGCACGAGGGCTGGGGAGGGGCAGGAAATTACAAGCAGGCTCAGCGAGGGTGCATTATAGGCACGAAGCTCTTCACATAGCTCCCATCATCAGAGAAGTGGGTGCGCAGGGTTTGAGTCAACGCAGCAGTTTTGCTCCCTGAAACAAAGGGGCAGGCAAGTTGTTGGTGGGATGTGGGAAACCCCTTCCAGCAAACGACAAACTCAGTGGGAAGGATGAAATTGGGATTGGAAAGGAAAAGACCTCAGTAGCTTTAATGTTCCCGTATTTTCCTCTGCATGCGCTTGGAATTGTAGCCCAAATGCATGAATCCTAATAGATCCTAAGGGCGGTGAGGCATTGGCACGGGTTGCCCAGAGGGGCGGTGGTGCCCCATCCCTGCAGATGGCTGAAGTCAGGCTGGAGGGGCTCTGAGCACCCTGTGGGTGTCCTTAATCACTGCAGGGAGTGGGACCAGATGGCCTTTAAGGGTCCCTTCCAACTCCAACCGTTCTGTGATCCTGCAATTGCTTCTTTTTGTCAAAAGGAGGCTGAGGAAGGCTGAACTGGAGATGTTCTGACCTGACGCTGTCTCTGTGTTGGTGAGGGGAGGGTGGGGGCTGCAGGCCCCACCATGGGGTTTTTTGTCATGGGTTCCTGAGCACGAGGAGCTCCCACAGGTTCCCCGCTCCCAGCATCTCTGCAGGGGCCTCAGATAACCTCCCCCAAGTCCTTTAAGCTGTGGCTTTATCTATTATTGAGCGGTGAGAGAACAGCTGCCCATGAAATATTTAAGTATTAAAACTTAGCTAAGAGCCTCCATCAGGTGCACTCATGCATCCTCCGAGGCAAAACTAAGTGGGGCATGCATGGAGGAGCGCTGCTGGGTGGTGGCTGCAGCCTTCCTCCGCAGTCCTGAATCATTTAAAATCTTCCCTCTTTGGGCTTTTTGGAGGGAGGAAACCCAACTTTTTTTCAGCCTGTTTTTCCTGGCTTTCCTCTGTGGCAAACCTGCTACGGCTGAGACAGCAGTAATGTTTTATAGGGCTGAGAGGGGGAGCCTGCTTGTGGTTCCTTTTATAGGGCTGAGCCCACAGCACCTTTCCATGAGTCACCATCTCTCCAGGTCCATTCCAGCTTCCTGCAGGCTCTCCATTCTTGGCTTTCTCAGTGTTGCAATCCCTCTGCAAGTGCCAGACCTCACCCAGTGTGTAACCAAATAAATGGTCCCTTGATTGGGGTGGAAACGTCCTGTGGCCACTTAGGGAACAGTGAACTTTATTCCCTGGTAACGTTTCTAGTGGCACAACCCATCACTGCAGCTGTAGGTAAACACAGCACTCGTGGACCTTGTGTTTATTGCAGTCAATGAGAAAAGGCACATTACGGTGGAAGGAGGGGAGGTGGAAGATGTACTCGCATGGCTTTTCCAGCCTGGGAAAGGAAAAGAAAAAAGGTGAAAAACCAAATTAAATGGAGAATTCTTGGCCCTGCTGTACAAATCTGTGTTCCGGATGTCTGGGCTGGGTAAATCGGGCACACGTGAGGGTTGTAGAGGAGCCATCCCTCTCTGGTAACAAATCTCAAGCTGGTTTCCAAGGCAAGGTCATGGCCATGTGGGATGTCTATGGAGCAGTGTTGCTCCTGCAGATACTGAGCTACAGAAGCCATGCATCTCAGCACTGTATCCACTGTGCCAGGGCAGTGATGCGGCTGGTTCCCGCACCACGAGGACGCATGGCTCTGACCCACAGCCTTCCTGTTGTTTTCTCTGCAG
Seq C2 exon
GGTGGAATGAGCTCCTCATCGCCTCCTTCTCCCACCGCTCCATAGCTGTGAAGGATGGGATCCTGCTGGCCACGGGGCTGCACGTGCACCGCAACAGCGCGCACAGCGCCGGTGTCGGGGCCATCTTTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002626:ENSGALT00000004139:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(22.6=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(23.2=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]