RnoINT0165482 @ rn6
Intron Retention
Gene
ENSRNOG00000005990 | Wdsub1
Description
WD repeat, sterile alpha motif and U-box domain containing 1 [Source:RGD Symbol;Acc:1359296]
Coordinates
chr3:45934082-45935482:-
Coord C1 exon
chr3:45935376-45935482
Coord A exon
chr3:45934259-45935375
Coord C2 exon
chr3:45934082-45934258
Length
1117 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
GGCCTGCGGTTTTAAAGCAGGAA
3' ss Score
3.72
Exon sequences
Seq C1 exon
GTACGTCACGACTTGTGCGTTTGCACCCAACACTCTCTTACTTGCTACTGGTTCGATGGACAAGACAGTGAACATTTGGCAGTTTGACCTGGAAACACCTTGCCAAG
Seq A exon
GTCAGTAAGACAACCCCACCCTTGTTTGTTCTGCAGTGCTCTCAAACCCAGGGCCTCCGTCCTGCAGGGCAGGTGCTCTCTGCAAGCTACAGCCCCAACCCAAGCATTGAGCATCCTTAACCCATCTCAACACTAATCAGAAATCTGGGCACTTCCTTTGTGTGTATGTGTGTGGTCCTGGGGATTGAACCTGCAGCCTCGTGCACACTAGGCACGTGCTCTACCTCAGAGCTGTACTCCCAAGCCTGAACTTTAATAAATCCTTGGCATGCATTCATATTGCCTGTCCCAACACACCATTCAGACTCAATTTCCATATACCTTAAAACTAATTTTTGAGGGTCCTGTGTTAGGGTGGCGATAAATGCTTGCACATACAGTCTATGACTATACATGCATACATGGTTTAATGTCGTTTGCATTTGGAGCCATGTTTCTCTGGTGACTGTAACCCAAGGACAGAATAGGAATCACAGATTTACCGTGCGCACTGGCTTTCTTCCTTGGCCTCACCGAGAAGCGCAGACATGTGTTAGGAGTTTCCCACTCCGCACTGTCAGCAGTAACCACATGGTGTGCTGATATGCAGTAACCACATGGTGTGCTGATGTGCAGTAACCACATGGTGTGCCGATATGCAGTAACTACATGGTGTGCCGTTATGCAGTAACCACATGGTATGCTGATATGCAGTAACCACGTGGTATGCTGATATGCAGTAACTGCATGGTATGCTGATATGCAGTAACTACATGGCATGCTGATATGCAGTAACTGCATGGTGTGCTGATGTGCAGTAACCACATGGTGTGCTGATATGAGGTGATAGAGCCGACTGAGGGAGGATTATGTAGTGAAGAGAAGTTGGACTAGAAGTGCAGGTCAGTGTGGCTCACGTGCACGCGGCACGAGATTTGACCCCCAGCACCACAAAACCAAAACCTGTCTTTCTGCAGTGAAAAGTTCCTAAAGACTAGCATTTCCCATAGCATCTGCTCACTCCTGTAAGATCTACCTCACCTCTTAAAGGGAAGTTAAAACGGTACAACGTGTTCAAGGTGGGAATGGCTGGAGAAGCATTTGTTTTCCATTCACTTGGCCTGCGGTTTTAAAGCAG
Seq C2 exon
GAAGCGTAAGCGATCAGCTGAAACATTTCATTGAGGACTGGTCAGAGGAGGATGTCTCAAAATGGCTTCGTGCTCAAGGCTTGGAAGACCTCGTTGATATTTTCCGGACAAACAACATCGACGGGAAAGAACTATTGCACCTCACAAAGGAAAGTCTGGCTGGTGATATGAAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005990:ENSRNOT00000008168:8
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:
PF0040027=WD40=PD(69.2=73.0)
A:
NA
C2:
PF0764712=SAM_2=PU(74.2=81.7)
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:
CACGACTTGTGCGTTTGC
R:
CGATTTTCATATCACCAGCCAGAC
Band lengths:
278-1395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]