RnoINT0045220 @ rn6
Intron Retention
Gene
ENSRNOG00000009403 | Dcaf17
Description
DDB1 and CUL4 associated factor 17 [Source:RGD Symbol;Acc:1565551]
Coordinates
chr3:57654422-57656230:+
Coord C1 exon
chr3:57654422-57654558
Coord A exon
chr3:57654559-57656151
Coord C2 exon
chr3:57656152-57656230
Length
1593 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TCCTCTTTGTTCCTTCAAAGGTA
3' ss Score
10.43
Exon sequences
Seq C1 exon
GGAGAAATACTTCCTGACCCGTCAGACTATAAATCTTCACTCATAGCACTGACTGCTCATAATTGGCTGCTTCGTATATCAGCAACTACAGGGGAAATCCTGGAGAAAATATACCTTGCTTCCTATTGCAAATTCAG
Seq A exon
GTAATGTGAGATTATTATTTAAAATTGTGTTGTAAAAATGTGAGGCCTGTGACCTAGGAAATCTTAGGCTCTCTCCAGTCTTGCCCTGTGTCCCCAGTTTTCCTCATGTATTTTATGACCCCAGTTTCTTTATAATCTTCTTTTTGTTCTCTACTTTGCTCTAGTTAAAGATTTGAGGCTTGTCACCTACGTTATTTATCTTTGTATTTCAAGTAAGTAATTAGCACAAAGTAGTTAGAGGTAGGTGGCTGACGGTTCCCATTCTAGAACAATCCAAGAAATGCAATTGTAACCCCTAGTTTATAGGTACATGCAAATTTCAGAATGGATGTGAGTATGCAATTTGTAAAAGTAATATTTGTAATACATTTTATGTCTCCCATTTTAATTTGGAAAGGAGTGTAATGCCATGCGCCTTTAATCCCAGCACTCAGGAGACAGAGGCAGGGGTACCTCTGTGAACTCTAGACCAGCCTGGTCTACACAGTGAGTTCCAGGATAGCCTGGGCTACATAGAAAAACTAAACTAAATAAACCTAAGTCGGAATGGTCTGTGTATGTGTGTTTGTGGGTGCAAGCGTGTAGGGGGTGTTTTGTTTGTGTGTGTGCTTACTTGCTTGCCTTTTGAGACTGGCTCCAAGCTGACCTTGAATTCCTGCCTCCTCCTTTCAAGTTCTGGGATTGCAGGCACCCATATCGCACTTGTTTTCTTCCATACTGGCACTGAAGCCAGGTTTGTGCATGCTAGGCAAGCACTCTCCCAACTCAGCTGCACCCCAGCCCTGGCTATTTCTGAGGTTTGAATGCTCTTAGGTTAAACATGTTTTTATAGCTGTATTCATTCTGTTCGTTTACTTGTTTATTGTGAGTGTTCTACTTGCATGTGTGTGTATGCACATTTGTCTGGTGGCCATGGAGGTCAGAAGAGGGCCCTGGAACTGGAGTCACGGATGGTATGGATGGTTGTGAGCCACCACGTGTGGGTGCTGGTAACTGAGCCTGGATCTCTGCAACAGCAGCCAGTGCTCCTACCACTGGGCCACCTCTGCAGCCTTCTCAACCAAGTTTTAACCCGCACAACAGCGGATGCTCATCAACCTCCAGTACCTAGGAGGCTGAGCCAGGAAGATGGGCTTTCACAGCTATCCTCAGTAACAGAACAAGTCAGGGCCCAGGCTATAGGAGGACTTGTCTCAGATTTTTTTTCATTAGAAGAGAATTATTTTAAGACTCTAGAAAAATTAAAATTTAAGTAGAAATGTATCCATATAAGGATCTAGAGCAAATCATTAAAGTTATTTGTTTTAAAATAGATTACTTTGCTCTTATAATTTAAGTTATTAAAAAAAACCTTAGTTCTAAGATAGTATGGCAAGCATGGTGGTTCATGCCTGTCACCTCGGCGCTGGAGACGCTCAGCAAAAGAACATCAGGTTCAGGGTCAGCCTGGCTACCTAGAGACTCACAGGCCAAATTTCATCTCAACAAACAACATGTAAACAACAACAGTAGATGAGTAAATAAAGTATAATGTTTTGATTTTGAGTATAAGGGACTGGTCCAAACATTAAATTCCTCTTTGTTCCTTCAAAG
Seq C2 exon
GTACCTGAGCTGGGACACTCCTCAAGAGGTCATTGCAGTGAAGTCGGCTCAGAACAAAGGGTCTGCAGCAGCTCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009403:ENSRNOT00000031463:4
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=0.074
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAAATACTTCCTGACCCGT
R:
TGCTGCAGACCCTTTGTTCTG
Band lengths:
207-1800
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]