DreINT0074556 @ danRer10
Intron Retention
Gene
ENSDARG00000054874 | gpsm1b
Description
G-protein signaling modulator 1b [Source:ZFIN;Acc:ZDB-GENE-110203-5]
Coordinates
chr5:70973999-70974593:-
Coord C1 exon
chr5:70974458-70974593
Coord A exon
chr5:70974142-70974457
Coord C2 exon
chr5:70973999-70974141
Length
316 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GTGTGTATTGTTGTGTGCAGGTG
3' ss Score
9.64
Exon sequences
Seq C1 exon
GACGATCGGGGACCGTGTTGGAGAAGGGAAGGCCAGCGGGAATCTGGGAAACACGCTGAAGGTTTTGGGCCAATATGATGAAGCTGCGGTCTGCTGTCAGAGACACCTGGATATTTCTCAAGAGCAGGGAGACAAG
Seq A exon
GTGAGAAGAACACTGCTTATCCATGGAGAAATACTGGAGGAGGAGGAGGACAGACAGTACAGCTCTGCTTCAGTGTCACCTCCGTCACGATTAGTCTTTAATTCATTTATTTCCTGAGCATAATAGAATAAAGGCCGAGTGTGTGCTGATGACGATCTTCTCTTAATTTGCTGACATCTTTTGTAGTTGCACGTGTTTTCTTTAATGCAATTAATATAATTCAATTTAATTTCTTCAATCGATAAATGCATTATAAATATATAAATGAAATCTCCTGGATTAATCGCTGTAAAACGGTGTGTATTGTTGTGTGCAG
Seq C2 exon
GTGGGTGAAGCGCGGGCTCTGTATAACATAGGGAACGTGTTTCATGCTAAAGGCAAGCAGCAGCTGTGGGGCGTCTGTCAGGAGCGTGGAGATCTGCCTCCAGACGTCAGAGAAACACTGCAGAGAGCCACGGCCTTCTACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000054874:ENSDART00000011955:3
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:
PF134141=TPR_11=PD(0.1=0.0),PF134241=TPR_12=PU(61.0=78.3)
A:
NA
C2:
PF134241=TPR_12=PD(35.6=43.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCGTGTTGGAGAAGGGAA
R:
TCGTAGAAGGCCGTGGCTC
Band lengths:
270-586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]