DreINT0173003 @ danRer10
Intron Retention
Gene
ENSDARG00000022187 | usp6nl
Description
USP6 N-terminal like [Source:ZFIN;Acc:ZDB-GENE-041210-192]
Coordinates
chr4:24060010-24060326:-
Coord C1 exon
chr4:24060261-24060326
Coord A exon
chr4:24060110-24060260
Coord C2 exon
chr4:24060010-24060109
Length
151 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGA
5' ss Score
7.63
3' ss Seq
TATGTGCGTGTTTTGAATAGACT
3' ss Score
6.69
Exon sequences
Seq C1 exon
GATAACCAGGAGGTCTACACCAGCTTATACACTATGAAGTGGTTCTTTCAGTGTTTCTTGGACCGG
Seq A exon
GTATGAACACTTAATACACAGTTTTAGTAAATCTAAGCATATTATTTTTATTACTGTTGTTGTTGTTGTTATCATTATTGTATATCATGATGTTCTATTATTGCTTTGTACAATATGTAGTGTTATTGATTTATGTGCGTGTTTTGAATAG
Seq C2 exon
ACTCCATTCACGCTGACACTGAGAATATGGGACATTTATATTCTGGAAGGAGAGCGAGTCCTGACTGCAATGTCTTACACCATCCTGAAACTTCACAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022187:ENSDART00000143571:11
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGAGGTCTACACCAGCTT
R:
TGTGAAGTTTCAGGATGGTGT
Band lengths:
158-309
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]