DreINT0175244 @ danRer10
Intron Retention
Gene
ENSDARG00000044801 | wdr38
Description
WD repeat domain 38 [Source:ZFIN;Acc:ZDB-GENE-050417-160]
Coordinates
chr21:5758915-5759961:+
Coord C1 exon
chr21:5758915-5759031
Coord A exon
chr21:5759032-5759863
Coord C2 exon
chr21:5759864-5759961
Length
832 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGA
5' ss Score
5.29
3' ss Seq
TAACTGTGGTTGGCCGTCAGCTC
3' ss Score
3.41
Exon sequences
Seq C1 exon
GTCCAGTGAAGTGCTGTGTTTTTTCCAGTGACGGTCGGCTGTTTGCGAGCGCGTCTCATGACTGCAGCGTCCGAATCTGGTGCAGCTCCAGCCTCAAATGCACACACACACTGACAG
Seq A exon
GTGTGAACACAGAAATACACACTGTGATGCATTGCATCATTCACAGCATCAGCAGTAACAAAAATATCATTTAAATTCACTATTATGCCCAAGTGTTCTGGCCCAGATTTGGCATAAAGCTGGCACAGCAGGCATTCATCCAGCGCTGGCATACAGCATGTGGGCCAAACATGACTCTGGTTTGGCAGAAGTGGCAAACAATACTTAGCCCAGATGTTAAATGTAGTATTTGGCCCAGATGTTAAAAATTGATATGTGGGCCATGTCAGTTTGGCCCATCTTGACCCACATCTAAAACAGATTAAAACATTTTACCAATCAGGTTGCTTCCAGAAAAAGCATGTCCATAGCACCCCTAAAGTGCAATGATTTAAGGGTTTATCAGTTTCATTGTAGTCGTGACACACCAGTTATGGGTTATTAACTTGGCCTAGATATGGTCTATGTTTGGCCCTTGTCTGGAAGCCAAACTTAGTCTTGTACCATATTCACTGCGGCATGTGGGCCAAGCAAAAGCTGATTGTGTGGGCCAGAGCTGGACTAGAGACATTTTGCTATGTGGGTACATTAATATACTGTATATATCATATTATACTATAATTTGCACTGTAAATTATATATTATACTATAACTGATCGGCAATATTTGTCCCAACATTGGGTCAGATATGGAAAAACCCAACCGTTTGGTTAATTTTAATTGAATTGAAAAAAATTAACCCCTGTGATGTTGGGTTGTGTATATTTGACTCAAAGTTAGGTTAACAACCCAGCATTTTTAGAGTGTATAGATTCAGATGACGTTTACTATAGTAACTGTGGTTGGCCGTCAG
Seq C2 exon
CTCACAGGCGCAGTGTGGAGACGGTGAGCTTCAGTCCGGACGGTCAGTGGCTACTTTCGGGTGGATGGGACAACAGAGCCCTGATCTGGAGCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044801:ENSDART00000065848:3
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=67.5),PF0040027=WD40=PU(20.5=20.0)
A:
NA
C2:
PF0040027=WD40=PD(76.9=90.9)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCAGTGAAGTGCTGTGTTT
R:
CTGAATGCTCCAGATCAGGGC
Band lengths:
215-1047
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]