DreINT0126241 @ 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
chr15:4558093-4560065:-
Coord C1 exon
chr15:4560042-4560065
Coord A exon
chr15:4558654-4560041
Coord C2 exon
chr15:4558093-4558653
Length
1388 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCTCCTTTGTTTGCCTGCAGACA
3' ss Score
11.53
Exon sequences
Seq C1 exon
TGTCTAATGCTACAGAAGGCACAG
Seq A exon
GTGAGTCCATTTCATAGGATTTCGAAATGTTATGAGTAGATTTCATTCATTTTAAGAGGCTATTTAATCTGTCAAGAGTATTATGTCCTGTTTATTGTGAGTTCATGCATAATTGATTCAGTTAACAGTTCACGATCATCAAGCTTGCAGATTGAATTCATCCGGGTGGCTTGTTTTAATTTTAACAAGCGGAGCTCATGGATGTTACTTAGTTAATTATTTAATATATTTTAGTTTCTTTTTTTGTCTGACAAATTAGATTATCCAAGAACTTAAATAAATAAATAAATATGTTTCATTTACTTTTGTTGGTTGTACCACATGATTTTTCTTTCAGTGGCCAAAAAAATCTACTGCATACTTAATAAATAATTAAATACATCACTAAATATAATCTATATATACACGGTCAAAATCAACTTATGATCCCAAATGATGTTTAACAGAGCAAGGAAATTTTCACAGTATGTCTGATAATTTTTTTTCCTCTGGAGAAAGTCTTATTTGTCTTATTTCGGCTAAAATAATTGCGGATTTTAAATTTTTAAACACCATTTTAAGGTCAAAATTATTAGCCCCTTTAAGCTATACATTTTCTTGATAGTCTACAGAACAAACCATCGTTTTACAATAACTTGCCTAATTACCCTAACCTGCCTAGTTAACCTAATTAACCTAGTTAAGTCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTTTCGAAAAACATCTAGTCAAATATTATTTACCGTCATCATGGTAAAGATGAAATAAATCAGCTATTAGAGATGAGTTATTAAAACTATTATGTTTAGAAATGTGTTGAAAAAATCTTCTCTCTGTTAAACAGAAATTGGGGGAAAAATAAACAGTGGAGCTAATAATTCAGGGGGGCTAATAATTCTGACTTCAACTGTTTATGCATGAAACCTTTTAAAAATTTGGGCACAAACGGGTTAAATGTCACCTTAAATATCTTGAAAAATATTTGTTTAAAGATGTGCTGTCTTCATGGCAAAGATAAAAGAAATCAGTTATAAGAAATGACTTATTAATACTATTATGTTGAAAAAAACATTTCCTGTATACAGAAATCGAGAGGAAAAATACAGGGGGGCTAGTTATTCTGACTTCAACTGTATATACTTATGCATAACACATAAAACCAAACATTATGTAAACACAAACTTTTATTTTGGATGTGATTTAATCATTTGACAGCACATTTATTTATATAATTGTTAGGACAGTAGAACATATTGCCTTTATAACTCACCCTACATGATGTTTTCAAGTCAGTGTATAGATTGAACACATATTTAATCTCCTCCATCTAGATTTTCCCCATAAGTCAGTGATGGATTCTTGTCTCCTTTGTTTGCCTGCAG
Seq C2 exon
ACACTGGCTCTGGGACGGCCGTGGAGGAGAACCTCTGTAAGATCTGTATGGACTCACCCATCGACTGTGTGCTTCTGGAGTGCGGACACATGGTCACGTGCACAAAGTGTGGCAAACGCATGAGCGAATGTCCCATCTGCCGACAGTACGTGGTGCGGGCAGTGCACGTGTTCAGATCCTGAACAACATTTTCCATTCTCGGAGATCTTCCCCTGATCAACAGATACTGTAGAAAACCATCATGTGGCCTTTAAATCTTGCACAGTTTATCCTGTGGCACTTTATATGTGATAATGACTGAGACGCGCAAATCTCAAACCAATAACTGCGCTGGTTTTACTTTCATTTCTTCAAAAGTGCGTCTTCTGGATATTTTGAAGAGGAAGAAGCTGTTCGTAATCATGGATCACATGTTTGTTAGATGACAAAAATCAGTGCAGCAATAATGCCCATTTCTGCTATTGGTAGGATCATATGAATGTTATAAGCACAGATAGCATCTTCAGAAAGTGCCTTGCATGTCACTGCCCTGCTGCTTTTAATACACCTGTTTATCAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042833:ENSDART00000008170:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.046
Domain overlap (PFAM):
C1:
PF102084=Armet=PD(10.4=77.8)
A:
NA
C2:
PF139201=zf-C3HC4_3=WD(100=75.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTAATGCTACAGAAGGCACA
R:
TGGTTTGAGATTTGCGCGTCT
Band lengths:
345-1733
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]