BtaINT0006071 @ bosTau6
Intron Retention
Description
Bos taurus zinc finger protein 582 (ZNF582), mRNA. [Source:RefSeq mRNA;Acc:NM_001105026]
Coordinates
chr18:63944788-63945003:+
Coord C1 exon
chr18:63944788-63944826
Coord A exon
chr18:63944827-63944876
Coord C2 exon
chr18:63944877-63945003
Length
50 bp
Sequences
Splice sites
5' ss Seq
ATGGAAAGA
5' ss Score
1.29
3' ss Seq
ATACCTGCCTGTTGTTCCAGGGG
3' ss Score
8.68
Exon sequences
Seq C1 exon
ATTCCTGCAGAGACCTCCTCCATCGCCTCTCATCCCATG
Seq A exon
GAAAGATGTTGCCTTGAAATATGCTTATACATACCTGCCTGTTGTTCCAG
Seq C2 exon
GGGTCAGACTTATTCAGGGATGTGGCCGTAGTCTTCTCCCAAGAAGAATGGGAACAGCTGGCACCCACTCAGAGGGACTTGTACAGAGACGTGATGTTGGAGACCTATAGCAACCTGGTCTCCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030348:ENSBTAT00000063919:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.308 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=93.0)
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:
ATTCCTGCAGAGACCTCCTCC
R:
AGGTCTCCAACATCACGTCTCT
Band lengths:
145-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development