BtaINT0161505 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039223 | WDR38
Description
Bos taurus WD repeat domain 38 (WDR38), mRNA. [Source:RefSeq mRNA;Acc:NM_001163946]
Coordinates
chr11:95848416-95848746:+
Coord C1 exon
chr11:95848416-95848532
Coord A exon
chr11:95848533-95848648
Coord C2 exon
chr11:95848649-95848746
Length
116 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CACTTGGCGGGTGTCTACAGGTC
3' ss Score
5.42
Exon sequences
Seq C1 exon
GCCCCGTGAGGTTCTGCCGCTTCTCCCCTGATGGCCGCCTCTTTGCCAGCACCTCCTGTGACCGCACCATCCGCCTGTGGGATGCCACAGATGCCAAGTGTCTGCAGGTCCTGAAGG
Seq A exon
GTAAGTGGGCTGGGGGGGAAGAGTGGGAGCCAAGCAGCCAGGCCTGGGTTCCTGTTCAGACCTTGCCGTGTCCTGTGCCACCTCGCCTCTCCTCGACACTTGGCGGGTGTCTACAG
Seq C2 exon
GTCACCAGCGGAGTGTGGAGACCGTCAGCTTCAGCCATGACTCCAAGCAGCTGGCCTCGGGTGGCTGGGACAAGAGGGTGATGCTTTGGGAGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039223:ENSBTAT00000053781:3
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
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGGTTCTGCCGCTTCTC
R:
CTGCACCTCCCAAAGCATCAC
Band lengths:
210-326
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development