DreINT0173013 @ danRer10
Intron Retention
Gene
ENSDARG00000022187 | usp6nl
Description
USP6 N-terminal like [Source:ZFIN;Acc:ZDB-GENE-041210-192]
Coordinates
chr4:24063389-24064205:-
Coord C1 exon
chr4:24064085-24064205
Coord A exon
chr4:24063484-24064084
Coord C2 exon
chr4:24063389-24063483
Length
601 bp
Sequences
Splice sites
5' ss Seq
ACGGTATAA
5' ss Score
4.59
3' ss Seq
ATGTGGTTGTGTCCATCTAGGTT
3' ss Score
9.48
Exon sequences
Seq C1 exon
GAGGTGGGCTATTGTCAGGGCATGAGTCAGATCACTGCGCTGTTACTCATCTATATGAATGAGGAAGATGCTTTCTGGGCGCTTGTTAAACTGCTGTCTGGACAGAGACACACCATGCACG
Seq A exon
GTATAAACTTTTATTCACCCTGGAACATATGAATGGTGTGAACAAGTTGTTCAAATATTTTAGTAATTATAAAACTCTATATATATTTAGTTTAGTTTAGTTTCTATGATCATTTTTGATCTCATTGCATAACATTAGTGGACAACAATTGATCTACAACTAGAAATGAACCGAAATTAAAATTTAAGCCAAAACTGACATTTTTGAATGCACTTGACTCAAAACATATAATATTATATATTTATATAATATTATAATATATAAAAAATTATATTATATATACATATAATAATATATATTTTTAATGAATTAACATTATTTTGTAGGAGTCTTTACATTTTATTTAATAAAAATAAACTGATTGTAAAAAAAGAACTACAATTAAAAAATAAATAAATAAACAGATTTTTTTAACAGCAGAAAAAAAAAATTGACGACTACTTTCACATTATCCACCAATAATGGTCTTTTTGTTCAGCACCAAAAATTGGCTACATCCCTAGCTACAACACGTTCATTTTTTCAGTTGTATATGTTGTAAACATGCTCTCCCGTATCAATAGTTGTATCAAATGTAAAATATGTGGTTGTGTCCATCTAG
Seq C2 exon
GTTTCTTTGTACCAGGGTTCCCTAAACTTATGCGCTTCCAGGAGCATCATGATCGTATTCTGCAGAAGATGATGCCTAAACTTAAACAACATCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022187:ENSDART00000143571:9
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(19.0=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(14.8=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:
GAGGTGGGCTATTGTCAGGGC
R:
AGATGTTGTTTAAGTTTAGGCATCA
Band lengths:
215-816
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]