RnoINT0164912 @ rn6
Intron Retention
Gene
ENSRNOG00000014102 | Wdr38
Description
WD repeat domain 38 [Source:RGD Symbol;Acc:1562587]
Coordinates
chr3:23290819-23292354:+
Coord C1 exon
chr3:23290819-23291011
Coord A exon
chr3:23291012-23292233
Coord C2 exon
chr3:23292234-23292354
Length
1222 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCA
5' ss Score
6.43
3' ss Seq
CTTTTGCCCTGTACTTTCAGGTC
3' ss Score
11.16
Exon sequences
Seq C1 exon
GGGAATCCTTGAATTTGACACTCCCAAAGTTCTGCTGCCCTAGCCAACACCATTGGGCCTCCCACATCTGTCCGTGCCCACTTTGGTCTGGTTGGGAAGCTGGCAGGCTTGGTTCTGGTCTCAGCTCTGTTCTGTCATGGAGGAACTAAGTCACTTGCCCATGCCTCATCCCCCGGGAGCCTGTTTCTCAGAG
Seq A exon
GTACCAGAAATAAGAGACCTCAGACATCTGCTGTGAGGGCTCTGGTAATTAATGAGCTAAGGGACCAAACCCAGGATCAGCACTACAATCCGCCTCTGTATTTCTCTAGAACTCAGTTTCCTCACCTGTAAAGGTCTGTTTGTAGGTTTCGGGTCAAGAAATCCATGTATGATCCTGAGAGCCCCTGGGACCTCCCTCCCGCACCTTCAACCTCAGCTGGCACAGTAATGAACATTAGCCAAGACCTTTTTTAAAGCCCTGTACTAGGCACACTCTGCCTCCTGCTCCTTGCACCCTGGAGGTAAAGGCGGATGCCAGCCACTCCTGGCCAGAAGCCTGGCTCCTCGTGGGTACTATCACGCGCTAGGCTCTCACTTGTTTGATTTAACTACGGATTGTGCGGCGGTAAATAGGATCCTGTCCTGAGAGAGGAAGGAATCCGTGGGGGCGGTGCTATTGTAGTCTCAGTTCGCGGGGCCGGCGCGCCCTCTAGAGGCCATTCTGCTTAGAGTCTTGCTCGACGGCCAGAGGGGCTCCCGATCTGGCCAGCCGGGCGATTCCAAAGTTGGTGTCTCCTGCCACTTTCTGTAACCTAAAAGCGCTGGCCTCACTACAGCCTTCCATAGAGGCAGCTCAGAGACCTTCCCCACTGCGGCTGCGCCGCCCCGCCCCATTGCCATGGAGACTGCTTGTACACAGTTTCCCTTCCCCTTCTACCGAGGCCCCTCCAACGGGACTGGTGCCCGCTTAGGAGGGAGCCCTCCCGGTTCTGGAGCGGGCTCCCATGAACATCAGAGCTCCAACAAAATTGGCCGTGGGCAGAGTGAGGTTCTACGGTCAACACCACGGGGAGGTGAGGCCTCGGGCTCTACACAGGCTTAGTGGGGTCAGGTCCCAACACAAGACTAGACCCTAGGTTTGTTTGTTTTTCTTTTTCGTTATGAGACAGGGTTTCACTACGTGGCTTGCCTTGAACAGAGATCCATCTGCCTCTGCCTCCCCTGATGCTGGGATCAAAAATGTGCATCATGATTTCTTCTACCTTGGACTCAAGGCTTAGGGTTGACTTTGAACTTGTCAATTTTTGTCCTAGAACTTGCTTTTGCATGGACCTGGAGTTAATGGACCCACCCGGGGCTCCTGGGCAGATTAGGGATGGTTAGAGCTGAGGGGACAAATAACTTCTGACAGGCACAGGACCACTTTTGCCCTGTACTTTCAG
Seq C2 exon
GTCAACTGCTCTGCCTTCTCCCCTGATGGCCGGAACCTGATCACAGCCTCAGATGATGGTTGTGTGTATGTATGGGGGACGAAGAGTGGGCGACTGCTGTGGAGACTGGCAGGCCACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014102:ENSRNOT00000018921:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.211 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0040027=WD40=PU(12.9=21.1)
A:
NA
C2:
PF0040027=WD40=PD(80.6=61.0),PF0040027=WD40=PU(28.2=26.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATCCTTGAATTTGACACTCCC
R:
CTGCCAGTCTCCACAGCAGTC
Band lengths:
304-1526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]