DreINT0033279 @ danRer10
Intron Retention
Gene
ENSDARG00000071013 | arl6ip6
Description
ADP-ribosylation factor-like 6 interacting protein 6 [Source:ZFIN;Acc:ZDB-GENE-070410-117]
Coordinates
chr6:13141396-13141662:-
Coord C1 exon
chr6:13141609-13141662
Coord A exon
chr6:13141529-13141608
Coord C2 exon
chr6:13141396-13141528
Length
80 bp
Sequences
Splice sites
5' ss Seq
TAGGTTGGT
5' ss Score
4.39
3' ss Seq
ATGGCTTATTTTTTTTACAGGTT
3' ss Score
9.61
Exon sequences
Seq C1 exon
ATTTAAAAACAGAGAAGATAACCACTGAAGATGGATCAGAAGTGCGACTCCTAG
Seq A exon
GTTGGTCCAGCATAAACCTAAAAGTTTGCTATATACGATATTAAATGGATGTTTTTAAACATGGCTTATTTTTTTTACAG
Seq C2 exon
GTTTTTGGAGTATTTTGGTCCTGTCTTCTATGGCTGGAGTTTTGTGTTGCAGTTTCTCCTGGACTCTAACTTACTTTGACTCCTTTGAGCCAGGAATGTTTCCTCCAACTCCTCTTTCTTCATCCAGATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071013:ENSDART00000104732:2
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:
PF0259210=DUF165=FE(27.3=100),PF032199=TLC=FE(20.7=100),PF150621=ARL6IP6=PU(23.3=73.7)
A:
NA
C2:
PF0259210=DUF165=PD(9.1=13.3),PF032199=TLC=PD(31.0=60.0),PF150621=ARL6IP6=FE(73.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGAAGATAACCACTGAAGATGG
R:
GGATGAAGAAAGAGGAGTTGGAGG
Band lengths:
171-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]