DreINT0175242 @ danRer10
Intron Retention
Gene
ENSDARG00000044801 | wdr38
Description
WD repeat domain 38 [Source:ZFIN;Acc:ZDB-GENE-050417-160]
Coordinates
chr21:5755614-5756714:+
Coord C1 exon
chr21:5755614-5755715
Coord A exon
chr21:5755716-5756593
Coord C2 exon
chr21:5756594-5756714
Length
878 bp
Sequences
Splice sites
5' ss Seq
GAGGTCGGT
5' ss Score
5.44
3' ss Seq
CATATTTTGCCTCCCTCCAGGTG
3' ss Score
12.17
Exon sequences
Seq C1 exon
ACATCTGATTCATTATTACGATTAACAGTCATGTGGAAGAGACATCCCTCAGAGGACTTCAGCGTGGACAACATCAGATATTTCTCCAGACACAAAGGAGAG
Seq A exon
GTCGGTAAGCATTATCTTTCTCACATATTTATACCAGGACTAACTGAAGAGACGTAAAAATGTCATTCAGCGTGATCGTTTATTTGCAAATAATTTTGTCAGGCATATTTAGAAGAAGAATGACTTGATCAAACATTAAAAGGCTTAATAATTATCTTTTAAAGGGCACCTATTATGCAAAAATCAAGGGGTTTGAACTCAGTAGTGTGTGATTATAACTAGCTTCTAAATGTAAAAATGCATTAATTTTATTTTTCATAATCGCATTTGATAAAAACAGTCTGCAGAAACACTGAATGACATTCTCCCTTGTCAATCAAAGGGGGAAATTCCCGCCTATTAGTGACCATTTCTCCCTCATTAGCATAGGACATTAGTCTTATTTCTGAATCTGCCACTATGCTGACACACAGGCATTTGTAGCTCCGCCCTCTTTTGAAAATAGCACAAACTCTTTTGAATTTAAAGGGACAGTCACCAAAATGGCCCAATTAGAATCAAAGACTTGAAGTTGCAGATTCAAAGAGATATAAAGCATTATTTGTGGGGTATTTTGAGCTAAAACTTCACATATAGACACTCTGGGGACATCAGAGACTTATTATACATCTTGTAGAAAGGGGCATAATAGGTCACCTTTAAATGATTATACTCTACAGCTCTCCTTAAAATACTAGGTTTTACCCATTTGTCAAAAGCACGTTTCTAATGATTTAATATAGAAATAAAATGTAGTTATTCTATGACAGCAAATCTATGCAAAAAGAAGCAAGCGCACAGGGTTTATGCACAGAGTAAACTAAACCGCAAGACAACAACAGACCTACACACGAGGAAACTGGGGCCCAATATATTATCCATATTTTGCCTCCCTCCAG
Seq C2 exon
GTGAACTGCTGCGCTTTCTCTCCTGACTGTCAGCTTCTGCTCACCTGTTGTGATGCCGGCAAACTCTACCTATGGAAAACTAGCACCGCCAAACTCCTGGCCTCAGTCAGCGGACACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044801:ENSDART00000065848:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0040027=WD40=PU(28.9=45.8)
A:
NA
C2:
PF0040027=WD40=PD(65.8=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
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGATTAACAGTCATGTGGAAGAGA
R:
CCGTGTGTCCGCTGACTGA
Band lengths:
206-1084
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]