DreINT0126239 @ danRer10
Intron Retention
Gene
ENSDARG00000042833 | rffl
Description
ring finger and FYVE-like domain containing E3 ubiquitin protein ligase [Source:ZFIN;Acc:ZDB-GENE-040426-2274]
Coordinates
chr15:4562553-4564641:-
Coord C1 exon
chr15:4564579-4564641
Coord A exon
chr15:4562764-4564578
Coord C2 exon
chr15:4562553-4562763
Length
1815 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
GCTGTCTCTTTGTGTGTCAGTTT
3' ss Score
8.22
Exon sequences
Seq C1 exon
AGCTTGGCTGAGGTGACAGCTGAGAGCGAGATGGACACTGAGCTGCAGATGGAGCAGGAGCAG
Seq A exon
GTAACTCCTGAAACTCCTCTCCTCCTCCTCCTCCTCTTCGTCTTTCTGCTGCTCTCTGGCCTGTTCAATGGGGCAGAGGAAAGAACAGTCAATTCTGGCCATCTTTCTGTGAATCAATATTGCTATTACTATTATTTATTTACTTATCTTTTGCACTGAAAGATTTGGCTTCTTGTTAATTTGTCGTTTTCCTTTCATGAACCGCTCGTCTATTCGTCTATTTTCAAGTCTTTTCTTTTCATGCCAGTCCCTCTTAAAGGTGCAGTAGGGGATCTGCCAAAATAATATCCGTTAGCGTAATAGATTTGAAAACCCTGTCCCTCCCATGCCGACCAAAGTCACACTCATCAATCTGAGCCTTTTTGTTTTTGCTAGCGGCAAAAAAAATACATAGGCTGTTTCTCAATTCCATGAACACAAAGAACGGGCTCACATTCTTGTGAAGACCGGTCCTGCCAAGTTACATCAGAAGAACAAACTCGTAAGACGGCGAGAACACAGAACACTTCCTGTGAGAAATGAGATGCAGCATTCTTCCTGATGTTCACATGTACTTCACATATTTGAACAGATCATTTTTTAAATATTACAGCATTCATACAATGATTCATAGTTTTATCTTTTCATTATTTTTATAATGCACAGAAGCCTTACAAATATACTTTGCACGATACAAATAATACAGATTTTAATATGAATTTTCAGCAAATAAACACCCTTAATGTGTTTACACCTTTATTAAGATTTTTTGACAGCATGGACACTTCATAGAATCAATCTACTTCCAACATTATCAAGCAGGGGAGTTCTCGAGACCTACCTGAACTCGGACTCCCCTCTCGCCCTGCAACGAGAGGGAGCCCCGGGCTCGAGGATCTCACGAGTTCAGGGCTCTCTCCCAGGACAGCATGCCAAACTAGCTTCATAATCAATCATCAGCTAAAGGTGAACTCTTGAAAGTGAAATAGATTTTTATTTAATGTATTTTTATGGTTTCTAATCAGCTTTTGGTGGTTATTTTAGTCAAAACGTGAAAACTAAAATAATATATAATATAAAATAAATCGATTATACAGACGAATCGCGGCAGCCATACTTTTGTTGAACCCAAAACAAGAGCCATTGACATCCATAGTAGGAAGAAAAATACTATGGAAGTCAATGGCTCCAACATCCTTTTAATATATATACTTATTTGTGTTAAAAGAAGTAAAAAAAAACAAGCAGGTTTTGATACAAGTGGAAAATGAGTCAATATTTTTATTTTTTTAGTGAACTATCCCGTTAAGCAAAACATGTGCAACATTAACAGTGTAGTGGAAGGCCAACACAGCGCACCACTCCTTGGTGTAATAATAATAAAGTCTAAAGTGTGGAAGTCCTTCAAACAGACCTTTAAACTGCAGATGTTATCGCTGCATTAGCATATATTGTTTGCATATTAACAGGATGTGGGCTTAAACTTTCATCAAACTGTCTTACATTGATCAATAGTCCGTGTGTGTGTTTTATAATCTCCCTTTGCATCCTTCTTGGCATGTCACACACTTCTCTTCACACTTGGTTTGTTTGCCACAGCTGATTTGCTCCTCTTTAGATTGCTCTGTGGTTATGGCTTTGGGTGACTAACTGGTAAACTAGTTTTAAAAATAGAAAAGTGAAAGTAAAAATGACGCACTTTCATTTTCCAACTCATCACCTTATGTCACTTCCAAATGATCAACTAATAGTCAAATTATTATTAATTGCTCTTATAGCTGGAATCAATAACAAGACTTTTGTCTTGTACTTACTCGCTGTCTCTTTGTGTGTCAG
Seq C2 exon
TTTTCAGACTCAGAGGAAGTTTTGGCTCCTGGCCGACGGGCGTCTCTCTCAGACCTAGGATCAGTGGAGGATATTGAGGATTTAAGTGTCCGGCAGTTGAAGGAGATTCTAGCCCGAAACTTTGTCGACTACAAGGGCTGCTGTGAGAAATGGGAGTTGATGGAGAGGGTCACCCGCCTGTACAACGACCAGAAGGACCTGCAAAACATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042833:ENSDART00000008170:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.303
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF102084=Armet=PU(88.1=83.1)
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:
AGCTTGGCTGAGGTGACAG
R:
TGTTTTGCAGGTCCTTCTGGT
Band lengths:
271-2086
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]