DreINT0071459 @ danRer10
Intron Retention
Gene
ENSDARG00000060631 | garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 (garnl3), mRNA [Source:RefSeq mRNA;Acc:NM_001128527]
Coordinates
chr5:32781762-32782031:-
Coord C1 exon
chr5:32781927-32782031
Coord A exon
chr5:32781837-32781926
Coord C2 exon
chr5:32781762-32781836
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
AATAACAATAATGTTTCTAGGCC
3' ss Score
4.13
Exon sequences
Seq C1 exon
AACATGCTGAATCGACGCTCATTCAGCGATGTCCTGCCAGAGTCACCTAAATCCGCCCGGAAAAAAGAGGAGGCACGTCAGGCTGAGTTCGTTAGGGTGGGACAG
Seq A exon
GTAAGATGTAGATTTAGCCAACATCCTGCATATGCCATGAATGCAACATGACAAAATGAGTAATGTTATTAATAACAATAATGTTTCTAG
Seq C2 exon
GCCTTAAAGCTAAAAACTATAGTTCGAGGTGATGCGCCCACCAGTCTAGTCACCACTGGCCTTTGCAGGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060631:ENSDART00000085636:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.370 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACATGCTGAATCGACGCTCA
R:
TCTTTCCTGCAAAGGCCAGTG
Band lengths:
179-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]