RnoINT0164917 @ rn6
Intron Retention
Gene
ENSRNOG00000014102 | Wdr38
Description
WD repeat domain 38 [Source:RGD Symbol;Acc:1562587]
Coordinates
chr3:23293761-23294141:+
Coord C1 exon
chr3:23293761-23293892
Coord A exon
chr3:23293893-23293991
Coord C2 exon
chr3:23293992-23294141
Length
99 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
GCTCAGGGATGTTTGTTTAGGCA
3' ss Score
1.05
Exon sequences
Seq C1 exon
GCCACTGGCTCCTGGGACTCGACTGTGCACATCTGGGACTTGCGGGCATCAAGCCCAGCTGTCTCCTTCCGTAATTTGGAGGGCCACACTGGCAACATCAGCTGCTTGAAGTACTCAGCATCTGGCCTCTTG
Seq A exon
GTGAGCTAGACTAACTGGGGCTCCAGGGCAGTCCCTATTTGCCTCAAAGGGTACAGGCCTCTGAGGTGGGGGTCACTGAGCTCAGGGATGTTTGTTTAG
Seq C2 exon
GCATCTGGCTCCTGGGACAAGACAGTCCGCATCTGGAAGCCCACAACCAACAACCTGCTTCTGCAGCTCAGGGGCCACGCCACCTGGGTCAATAGCCTAGCCTTCTCTCCCGATGAGCTAAAGCTGGCCAGTGCTGGTTACTCTCGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014102:ENSRNOT00000018921:6
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(30.8=27.3),PF0040027=WD40=PU(62.2=52.3)
A:
NA
C2:
PF0040027=WD40=PD(32.4=24.0),PF0040027=WD40=PU(84.6=66.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCCGTAATTTGGAGGGCC
R:
AGGCTAGGCTATTGACCCAGG
Band lengths:
171-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]