BtaINT0165725 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031686 | ZNF566
Description
Bos taurus zinc finger protein 566 (ZNF566), mRNA. [Source:RefSeq mRNA;Acc:NM_001077017]
Coordinates
chr18:47250213-47250740:+
Coord C1 exon
chr18:47250213-47250339
Coord A exon
chr18:47250340-47250644
Coord C2 exon
chr18:47250645-47250740
Length
305 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
CTTACTTCTTTTATAAGCAGGAC
3' ss Score
6.56
Exon sequences
Seq C1 exon
GAGTCAGTGATGTTCAGTGATGTGTCCATAGACTTCTCTCAGGAGGAGTGGGAATTCCTGAATGATGATCAGAGAGATTTATACAGAGATGTGATGTTGGAGAATTACAGCAACCTGGTTTCAATGG
Seq A exon
GTAAGGACATCCATAATAATTTAGATTCTGCCCTGAGAAAGTCTACTTCCTCTGGTGTTATACTCACCTACTTTTCAAGTAACCATTTGCGTTTCTATCTACATCCTTTTCCCAGAGGAATATTTTTAATCTTGTAGAGCTAGAAAGAGGAAGCTGCACTGAGTTGTGAGGAAAGTTTCAAGTGCTCTATTATGTTTCATAAATCTGATGTATCTTCCTTTGACTCTTTCTTAGTAATGAAAGGACTGGATTTGAATTCTGGGACATTCTCAACATAAACCTCTCCTTACTTCTTTTATAAGCAG
Seq C2 exon
GACATTCTATTTCTAAACCAGATGTGATCTCCTTCTTGGAGCAAGGGAAGGAGCCCTGGTTGGTTGACAGAGAACTAACAAGAGACCAGTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031686:ENSBTAT00000006397:3
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:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
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:
AGTGATGTTCAGTGATGTGTCCA
R:
TGGCCACTGGTCTCTTGTTAGT
Band lengths:
217-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development