DreINT0126455 @ danRer10
Intron Retention
Gene
ENSDARG00000071213 | rgl3a
Description
ral guanine nucleotide dissociation stimulator-like 3a [Source:ZFIN;Acc:ZDB-GENE-101130-1]
Coordinates
chr6:7989277-7989761:-
Coord C1 exon
chr6:7989607-7989761
Coord A exon
chr6:7989526-7989606
Coord C2 exon
chr6:7989277-7989525
Length
81 bp
Sequences
Splice sites
5' ss Seq
GCAGTAGGT
5' ss Score
4.53
3' ss Seq
TGTTTTTATTTCTTCCTCAGGAA
3' ss Score
10.52
Exon sequences
Seq C1 exon
ACAAGCAAATATGTACATCAGCAGAGGTCAATGCCTCTGCTGTTGAGAATCCTGCAACTGAAGACAACTTGGACGGACAGGAAGTACAAGAAATTGGTGATGTACTGGACTTCCCTGCACAGGACATTGCCGAGCAGCTTACAATATTAGACGCA
Seq A exon
GTAGGTGTCAAGATTTACACAATCAAGCTAGGTTTTAATTAAATGCCTGCATTCATTTGTCTGTTTTTATTTCTTCCTCAG
Seq C2 exon
GAACTTTTTAGCAAAGTGGTCCCATTTCACTGCCTTGGCTGCATTTGGTCTCAAAGGGACAAGAAGGAAAACCAGAATCTAGTGTCCACAGTCCGTGCCACCATTGCTCAGTTTAATGTGGTCACTAACTGCGTTATCACCTCGCTGTTGTGTCCTCCTGCCACCTCCCCTCCTGGATCCCCGTCATGCCATCGCAGCAGCCCTACATACAGAGCAAAGATTATCGAGAAGTGGATCTCTGTGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071213:ENSDART00000151358:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(7.0=30.8)
A:
NA
C2:
PF0061714=RasGEF=FE(35.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCAATGCCTCTGCTGTTGA
R:
TGAGACCAAATGCAGCCAAGG
Band lengths:
183-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]