DreINT0033254 @ danRer10
Intron Retention
Gene
ENSDARG00000035719 | arl5c
Description
ADP-ribosylation factor-like 5C [Source:ZFIN;Acc:ZDB-GENE-040426-1866]
Coordinates
chr3:15988870-15989216:-
Coord C1 exon
chr3:15989069-15989216
Coord A exon
chr3:15988954-15989068
Coord C2 exon
chr3:15988870-15988953
Length
115 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
TAATCTGAATCCTTCTGCAGATT
3' ss Score
7.66
Exon sequences
Seq C1 exon
TTTAACGAAAGAAGCAGTACAAACGTCTCCCACAATTGGAAGCAACGTAGAGGAAATCGCCATAAAGAAGACACGCTTTCTTGTCTGGGATATTGGAGGGCAGGAGAGTCTCAGAGCTACCTGGAACTCCTATTACACGAATACAGAG
Seq A exon
GTGTGTATGTGTGCACCTGCATGATGTGCTGCTCTCATAAAAGTCTAATGCTGGTTGTTGTGTGTTGTTCCTGGAATGCACTTTCATCAAATGTATAATCTGAATCCTTCTGCAG
Seq C2 exon
ATTATCATCCTGGTGGTTGACAGCACTGATCGAGAACGCCTGACTGTAACTAAAGAGGAGCTTCATCGCATGCTGGCACACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035719:ENSDART00000016616:3
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:
PF128032=G-7-MTase=FE(32.7=100),PF0002516=Arf=FE(28.3=100)
A:
NA
C2:
PF128032=G-7-MTase=FE(18.0=100),PF0002516=Arf=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACGAAAGAAGCAGTACAAACGT
R:
GTGTGCCAGCATGCGATGAAG
Band lengths:
226-341
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]