DreINT0129991 @ danRer10
Intron Retention
Gene
ENSDARG00000005593 | rxrga
Description
retinoid x receptor, gamma a [Source:ZFIN;Acc:ZDB-GENE-980526-36]
Coordinates
chr2:21112487-21115425:+
Coord C1 exon
chr2:21112487-21112538
Coord A exon
chr2:21112539-21115319
Coord C2 exon
chr2:21115320-21115425
Length
2781 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GTTCTATCCCTTTTATACAGATG
3' ss Score
7.54
Exon sequences
Seq C1 exon
ATGGACAAGACGGAGCTGGGCTGTTTAAGAGCAATCGTCCTCTTCAACCCAG
Seq A exon
GTAAAGACCAGTCCTGAATCTTCATCTCTCAGAAACGTGCAGGCTCTATGTCTTTTCAATAAACATAATCAGATGCAATATTTTTTTATCAAAGGGCCATGAAACCCCCTCGTTTCAGCAGGGTGTTTTCACACCTATACTTTGGAAAAAGTCAGAAAAGTGGGCATGTCCAGCTTTGTTTAGGGGGGAGTGTCGGAGGAAGAAAAGAGGCTTGGTATGGGAGTGTCTATTTGGGCGAGCTGAGTTTCAGAGTCAAAACACACACACACACACAGGGGACAAAGTGACTGTGTTTACATGGACATCTGTAGTCGAATTATTTGCCAAATTACTAAATGGTGGACTTTAACTGCAGTTTGGCTCTTTCATTCAGGGAATTCATTCATGCCCCTCGCGACAAACGAGATATTTGATTTGAGGAACTGCTCTAAGTATGTATTTTTCATGCAATGTTTGATTTCCCTGAAACTTAGATGCACACGGCAGGTAGCGTCAGAAAGCCGCGTGTGTTATTCCGAGCACAAAATGCGGTGAAAATCATACACGAGGTAAAAGTTTGGTTGTAGTGCTAACATGTTTACACTCGGTGCAATAGTTAACTTAGTTCGATACGAACAAACTGAATAAACAAAGAGCACTGGTCGCTCACTTACCGAATCTGTAGAGACAGGACATCCACAGCAACTAGAGCTGCGTCTTTATTAAGAGGAGACTACAAGCGAATCCGGATCTCAGCGTTTGCAGATGAGAACAGCTCTCAGGTAAACAATAATCCTCCTTAGACACGTAAGTTAAGTTATTGTTGTCGAGCGTCGCGTACACTATTAATCCACACGTGTCTCCAGCTACGCTCTGACAGAGAGAAAATTAAAACAAAACTTAACTGCAGCAAACTATAAAAGCAACACTTCACGCTTGTTTTGCCAACACAACGTGGCGTCTCTGTCGTCTAAACACTGTGACAGTAATGAATATTAATGAAGTTGCACAATAGAGCGCGCTGATTGGTTTGAACCAAGCTTAACTCATGTATTAATGCATCACACTGTAAGACATAATAAGACACACTCTGGCACAGACGTCCAGTCTGCACGCTGGAATACAGGCTATTATGTCATGGCTGTGACGCAGCTTCAAAAATTCGTTTCAAACCGAAGTACGAATTTGCTTGAAATAACGCAAAAACAACCAATTCATACTTTTTAGTGAAATATAGGTGTCCTAATAGTGTTTTTAGCAGTGTGGGACACATATACCACTGTCAAAAGCTCAAAAAATGTGTTTTGGTGTTTCGTGACCCTTTAACACTAGATATACTGAGGCATTTTGGCAGTTTTTCATTTTTGTAATTTACTATGTTCATACAAAACCCATCCAAATATAGTACTATAGACTTTTTTTCTAAGTGCTTGGATCTTTTATTCTAACATTGTTGTTTTATTAAAATTACAAAACACAAAAGAGTTCTGAGTATGTATACCTTTAATGGCCATAATGGCCAAATTGACTGCATTCATTTCACTGTTCACTTTTTTAGCTATAACCATAATGATAATTATATTGACATTTACACCAGTGCCAAACAAACATTTCTGGTCAAAGTCTGTTCACTGTTGAACAATCAGAGACATAAATGTGCACATTAAAATACTGACTGGTCAAATGAAAAAGCTAGCTATTTTGTTTATTGATCTGTTAGAGCACCAATAAATCAAAAAAATGAACAACCGCAGATTATTTCATTCTCTCTGTAAAGCAGGGGTGGCCAATCCTGTTCCTGGAGATCTACCTTCCTGCAGATTTCAGTTGCAACCCATAATCAACACACCTGCCTGTAATTATCACATGGTGTTCAGGCCCTAATTAATTGGTTCAGGTGTGTTTGATATGGGTAGCAACTGAAATCTGCAGGAAGGTAGATCTCCAGGAACAGGATTGACCACCTCTGCTGTAAAGTATTCAAGTATTAAACATTTATATTAAGAAGAAATTTTGACTATTCTATATAATTCTTTAAAGGTTGTTTGGGCTAAATTGGGATGTTTTTTATTATTTGTTAATGAACTGTTACTCATCTTTTCATTAAACATTTCAATAATAAATTGATGTTTTAACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTATATTATTTTGGCTGGAAATGATTTACAGCTGGTTTTGTTTGACAATTGACACAGTAACATAGTGTAAAGCGCGATATGAAACAGCATGTTTAATCCTTGCGCTATTTTAATTGAATGTAAATGGAGTCCATTCTGGAGTCCATACCAGCGACTCCAAAATTAGGATTCGAGAATTGGAATCGACTCACAAAAAACCCGGAACCAAACACCCCTACACCTTAGCAACCACTTAGCAAACGCTTTATCAACCTCTGTGCTTCCTGCCAACTGCCTTTGAGTTCCAGTGCAGTCACGTTGACTTTCTCAAGCCAACATCAAAGTTTGTCAATGAACTTTGGGTTCTAGTTTTATTGTTGTTATACTGTGGACCTCCTAATTCTCATTGAACTGGAATGATCAATAAAAGTTTGAGTTATATTTAAAACAAATGAATAAATAATTGTGTATCAATATAAAAAATGGACACTGTCATGATCGTCAGAAATATAATAAGGAATATTTATGTTTCAAGTCAGGATAAGGGCTTGCATGTGTTCTTATGTTCTATCCCTTTTATACAG
Seq C2 exon
ATGCAAAAGGACTATCAAACCCATCAGAGGTGGAGGCGTTAAGGGAAAAAGTGTACGCATCGCTGGAGGGCTACACCAAACACAACTACCCGGATCAGCCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005593:ENSDART00000021168:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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]