DreINT0129961 @ danRer10
Intron Retention
Gene
ENSDARG00000057737 | rxraa
Description
retinoid X receptor, alpha a [Source:ZFIN;Acc:ZDB-GENE-070314-2]
Coordinates
chr21:17902764-17905330:+
Coord C1 exon
chr21:17902764-17902855
Coord A exon
chr21:17902856-17905224
Coord C2 exon
chr21:17905225-17905330
Length
2369 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TGCATCTTCTGCTGTTTCAGACT
3' ss Score
8.1
Exon sequences
Seq C1 exon
AGTGCTGACGGAGTTGGTATCAAAGATGAGAGACATGCAGATGGATAAAACAGAGCTTGGATGTCTTCGAGCCATTGTACTATTTAACCCAG
Seq A exon
GTAACACTTGTGTATTTTCTTTTTTAATGGAAGCTTTTTATTACAAAAATCAAAAAGTAATTGTGGCTTTATGTCTTGCAACCAATACACTCACCGGCCACTTTATTCGATATTTATTAGACTTTACTGCAAACTTTTGCCTTCAGAACTGCTTAATCCTTCATGGTATAGATTCAACAAGTTACTGGAAATATTGCTCTGAGAATTTGGTCCATATTGACATGATAGCATCACACAGTGGCTGCAGATTTGTCGGCTGCACATCCAAGATGCAAATCTCCTGTTTCACCACATCCCAAAGGTGCTCTATTGGATTGAGAGCTGGTGACTGTGGAGGCCATTTGAGTACAGTGAACTCATTGTCATGCTCAAGAAACCAGTCTGAGATGATTCTCGCTTTATGACACGGCATTTTATCATGCTGGAAGTAGTCTTGCCTAAACTGTGGTCATAATAGGATGGACGTGGTCTGAAACAATACTCAGATAGGCTGCGCCGTTGACATGATGCTCAAATGGTATTAATGGGCGCAAAGTGTGCCAAGAAAAAATCCACTACACTATTACACCACCACCAGCAGCCTGAACTGTTAATACAAGGCAGGATGGATCCATGCTTTTATGTTGTTGATGCTAAATTCTGACCCTACCATCCGAAAGTCGCAGCAGAAATCGAGACTTATCAGACCAGGCAACGTTTTTCCAATCTTCTTTTGTCCAATTTTGGGGAGCCTGTGCGAATTGTTGCCTCAGTTCCCTGTTCTTGTTTGACAGGAGTGGCACCCAGTGTGGTCTTCTGCTGCTGTAGCCAATCTGCCTCAATTGGATGTGTTGTGCATTCAGAGATGCACTTCTGCATACCTCAGTTATAATGAGTAGCTATTTGAGTTACTGTTGCCTTTCAACAAGACATTTGCACCCACAGAACTGACGCACACTGGATATTTTCTCTTTTTCTGACCATTCTCTGTAAACCCTGGAGATGGTTGTGCGTGAAAATCCCAGTAGATCAACAGTTTCTGAAATACTCAGACCAGCCCGTCTGGCACCTGCAACCATACCACGTTCAAAGTCACTTAAATCACCTTTCTTCCCTATTCTGATACTTGGTTTGATCTGCCGCATATCGTCTTGACCTAAATGCATTGAGTTGCTGCCATGTGATTGATTAAACGTGGCTAATTAAAAATTTGTGTTACCAAGCAGTTGGTCAGGTGTACCTAATAAAATGGCCGGTAAATGTATACAGTATATGTGTTTTTGTTGTTTTTATACACTTTTTATGATATACATTTTGTTATCATATTTTGTTAACTACTTTTTTAATTTTATTTTAAGTATTTAAACAGTATAGCTTGTTTACATAAGGCTACTGCTGTTGTATTTATGCCGAGTTTTATTATTTTTCTGTATACAAAAATGTACGCTGACTTTTGAAAATGATTCATTTTATTCAATTATTATAAAACATATATTTTGATGCTTTATTTATTTTCAATATAAAAAAAACACTACTACACACATACTTACAAAATCTCAGTATGCACAAACCAAACAAATGTTGTCATCCATACAATACACATAAATCATTAAAATTACAGCATTTTATAAAATTATAATTACACAAAAGCAGAAAACCAAGCTCTAATCCCCAACTTTAAAAAAAAATATGCACATTTTTTTCTCCTACTTTAAACTGCATATATCTCTGATGTTGTGTTTGTCTTGTTTGAGAAGTCATTTCACTCAGATATATGTGACAATAGGCAAAAAACACTATCACAACTTCCATCACATACCTTTAAGTGAACATAACATATGCTGTTGAAATTAGTTTTTTTTAAGCAAGTATAAACAGCGTCCAAATAGTGTCCAAGTCTGCAATGATTTTTGATCCCATTTCCTCTCTCTCCATCTAACAATTCCCCCTCACAATCTCTTTACAATGTTTTAGGTTTTTCTGAACACTGGCCTTTGTACCCCAGAGTAAATGTACCCCCAATCACTGGCACAAAGCGTGTCCCATTCATTAATGAGGAAGAGTCCAGCTCTTTCTCAGAGGACAGACCTCTCTTCTGTTCCCTTCACATTACAGACAGTGAGGGAAAACAGACTACTCTCATTTTCCCCAATTAGAGGCTCTCAGAAGCCTCTTGCAAAGTTAGCAGATTGAGATGAGAGAGGATTAGTGTTGAGAATCAAGAACCGTTGCTTGTTTAGAACAGTTCAGTGTTTTTTTGAACATTGCTAGGGTTTTATTAACAGTTCTTGTTCTGTTGGGACTTTGTCTGCCCCGAGGATGTGCTGGAGCAGGATGGTACAGTTCCTACTCTAAAACTTAATTCTGTTATGCATCTTCTGCTGTTTCAG
Seq C2 exon
ACTCCAAAGGCCTGTCAAACCCTGGTGAAGTGGAAGCACTGAGAGAGAAGGTCTATGCCTCTCTGGAAGCTTACTGCAAACATAAGTACCCTGAACAACCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057737:ENSDART00000080481:7
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=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(15.9=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(17.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]