DreINT0033249 @ danRer10
Intron Retention
Gene
ENSDARG00000018627 | arl5a
Description
ADP-ribosylation factor-like 5A [Source:ZFIN;Acc:ZDB-GENE-040718-28]
Coordinates
chr9:23095508-23095808:-
Coord C1 exon
chr9:23095661-23095808
Coord A exon
chr9:23095592-23095660
Coord C2 exon
chr9:23095508-23095591
Length
69 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGAT
5' ss Score
6.04
3' ss Seq
CATGTGTCTCTTGTGTGCAGTTT
3' ss Score
8.62
Exon sequences
Seq C1 exon
CTCTATGAATGAGGTGGTCCACACTTCACCCACCATAGGCAGCAATGTGGAAGAGATTGTGGTGAACAATACACACTTCCTCATGTGGGACATTGGAGGACAGGAGTCGCTGCGCTCCTCATGGAACACTTACTACACCAACACAGAG
Seq A exon
GTAGATGTCCTGAGATCTCTCTGAAAGGGTGAAGGGAATGTCTCCTTAACATGTGTCTCTTGTGTGCAG
Seq C2 exon
TTTGTGATCGTGGTGGTGGACAGCACTGACCGAGAGAGGATCTCCGTGACCAGAGAGGAGCTCTACAGGATGTTAGCTCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018627:ENSDART00000007392:3
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:
PF0002516=Arf=FE(28.0=100)
A:
NA
C2:
PF0002516=Arf=FE(15.4=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:
CACACTTCACCCACCATAGGC
R:
GATCCTCTCTCGGTCAGTGCT
Band lengths:
171-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]