BtaINT0158977 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019488 | USP6NL
Description
USP6 N-terminal like [Source:HGNC Symbol;Acc:HGNC:16858]
Coordinates
chr13:12822962-12823220:+
Coord C1 exon
chr13:12822962-12823027
Coord A exon
chr13:12823028-12823120
Coord C2 exon
chr13:12823121-12823220
Length
93 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TGTTTTGTTTTTAATTATAGACG
3' ss Score
7.38
Exon sequences
Seq C1 exon
GATTCTCAAGAAGTCTACACAAGTTTTTACACAATGAAATGGTTTTTTCAATGTTTCCTTGATCGG
Seq A exon
GTGAGTGTTTCTTTTAAAAGTCCAATCATAAAATTAAAAATACCAGACGAGGACAAACTGTTCATCTTATTTCTGTTTTGTTTTTAATTATAG
Seq C2 exon
ACGCCCTTTACACTAAACCTCAGAATATGGGACATCTATATCTTCGAAGGAGAGCGAGTTCTTACTGCTATGTCTTACACAATCTTAAAATTACACAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019488:ENSBTAT00000025957:11
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:
PF0056613=RabGAP-TBC=FE(10.0=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTCTCAAGAAGTCTACACAAGTT
R:
AGATTGTGTAAGACATAGCAGTAAGA
Band lengths:
151-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development