DreINT0074571 @ danRer10
Intron Retention
Gene
ENSDARG00000017311 | gpsm2
Description
G-protein signaling modulator 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1169]
Coordinates
chr2:45646293-45646647:-
Coord C1 exon
chr2:45646508-45646647
Coord A exon
chr2:45646417-45646507
Coord C2 exon
chr2:45646293-45646416
Length
91 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TTCTTTCTCCTATTGCTCAGGGC
3' ss Score
8.02
Exon sequences
Seq C1 exon
GTTGGGCAGGCCAGAGCACTTTACAATTTTGGAAACGTGTACCATGCCAAGGGGAAGAGTGTCTGCTGGAGTGGAGCAGAACCTGGAGACTTTCCTGAGGAGATCATGACAGCACTTAGAAGAGCCGCTGAGTATTATGA
Seq A exon
GTGAGTCCGAACAACTTGTCACATGACTGGACATGGAGTGCATGTATGATACGGAGATTTTACATCCTCTGTTCTTTCTCCTATTGCTCAG
Seq C2 exon
GGCGAACTTGTGTATCGTAAAGGAGCTTGGAGACAGAGCTGCACAGGGGAGGACCTATGGAAATCTAGGGAACACCTACTACCTGCTGGGAAACTTCAGGGATGCCGTGGCCTCTCATGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017311:ENSDART00000024034:5
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:
PF134241=TPR_12=PD(33.9=42.6),PF134241=TPR_12=PU(18.3=23.4)
A:
NA
C2:
PF134241=TPR_12=FE(68.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGGAGCAGAACCTGGAGA
R:
GGCATCCCTGAAGTTTCCCAG
Band lengths:
178-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]