DreINT0071460 @ danRer10
Intron Retention
Gene
ENSDARG00000060631 | garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 (garnl3), mRNA [Source:RefSeq mRNA;Acc:NM_001128527]
Coordinates
chr5:32781566-32781836:-
Coord C1 exon
chr5:32781762-32781836
Coord A exon
chr5:32781681-32781761
Coord C2 exon
chr5:32781566-32781680
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TGTTTCTACCATCTTTTCAGCCA
3' ss Score
7.35
Exon sequences
Seq C1 exon
GCCTTAAAGCTAAAAACTATAGTTCGAGGTGATGCGCCCACCAGTCTAGTCACCACTGGCCTTTGCAGGAAAGAG
Seq A exon
GTAAGAGGCAAAAGGAAAATGAGAGGGGATGTTTTTTGCTTAAGATATATCTCTGACTTTGTGTTTCTACCATCTTTTCAG
Seq C2 exon
CCATGGGAGTCACAGTCGTTCTGCAGCAGCTTCCCTTATGATATAGTCTGTGGAGACTCATGGGGTCAGTCATTACTGGTCGCCACAGATTCAGCAGGAGTCATGCTGCTGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060631:ENSDART00000085636:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078017=CNH=PU(7.5=59.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATAGTTCGAGGTGATGCGCC
R:
GCAGCATGACTCCTGCTGAAT
Band lengths:
167-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]