BtaINT0161508 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039223 | WDR38
Description
Bos taurus WD repeat domain 38 (WDR38), mRNA. [Source:RefSeq mRNA;Acc:NM_001163946]
Coordinates
chr11:95849392-95849794:+
Coord C1 exon
chr11:95849392-95849523
Coord A exon
chr11:95849524-95849644
Coord C2 exon
chr11:95849645-95849794
Length
121 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TAGAGCTGTCTGCTGTCCAGGCA
3' ss Score
2.3
Exon sequences
Seq C1 exon
GCCACTGGCTCCTGGGATTCTACCATCCGCATGTGGGACCTCCGGGCAGGGACCCCTGGGATCTTCCACCAGGAGCTGGAGGGTCACAGAGGGAACATCAGCTGCCTGTGCTACTCACCATCTGGCCTACTG
Seq A exon
GTGAGCTAGGCTGCCTGAGTTCTGGGGTGGCTGCCAACTGCAATTCTGAGGGTCATGGGCCACTTGGTGGGCAGAGGATGCAGTCCCCAAACCTATATGCTTAGAGCTGTCTGCTGTCCAG
Seq C2 exon
GCATCTGGCTCCTGGGACAAGACCATTCACATCTGGAAGCCCTCAACCCGAAGCCTGCTCATCCAGCTCAAGGGCCACATCACCTGGGTGAAGAGCATTGCTTTCTCCCCCGATGGGCAGCAGTTGGCCAGTGCTGGCTACTCCCACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039223:ENSBTAT00000053781:6
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(63.2=54.5)
A:
NA
C2:
PF0040027=WD40=PD(31.6=24.0),PF0040027=WD40=PU(84.6=66.0)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGCTCCTGGGATTCTACC
R:
CCATCGGGGGAGAAAGCAATG
Band lengths:
245-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development