DreINT0089813 @ danRer10
Intron Retention
Gene
ENSDARG00000006639 | lnpb
Description
limb and neural patterns b [Source:ZFIN;Acc:ZDB-GENE-030131-9455]
Coordinates
chr6:10626911-10627099:-
Coord C1 exon
chr6:10627051-10627099
Coord A exon
chr6:10626953-10627050
Coord C2 exon
chr6:10626911-10626952
Length
98 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GTAATATGCTGTTTCAACAGACC
3' ss Score
7.3
Exon sequences
Seq C1 exon
GTGTGGATTTGCAGTACTGACAATGGGAGCCATCATTTCCAGGTGGAAG
Seq A exon
GTGAGTATTTCTCTCTGCCATTTCCCCACTTTCTTTCAGACATAATAACAATAATCTGAAGTAATACTAATAAATAATGTAATATGCTGTTTCAACAG
Seq C2 exon
ACCAAACCTTCCACTGTGGAACTGCTAGAGTCACTGGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006639:ENSDART00000133893:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083957=7tm_7=PU(5.7=88.9),PF110263=DUF2721=PU(5.6=77.8)
A:
NA
C2:
PF083957=7tm_7=FE(9.3=100),PF110263=DUF2721=FE(10.5=100),PF060117=TRP=PU(9.2=71.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGGATTTGCAGTACTGACA
R:
TCCAGTGACTCTAGCAGTTCCA
Band lengths:
87-185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]