DreINT0074554 @ danRer10
Intron Retention
Gene
ENSDARG00000054874 | gpsm1b
Description
G-protein signaling modulator 1b [Source:ZFIN;Acc:ZDB-GENE-110203-5]
Coordinates
chr5:70956701-70957269:-
Coord C1 exon
chr5:70957064-70957269
Coord A exon
chr5:70956863-70957063
Coord C2 exon
chr5:70956701-70956862
Length
201 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
GTGTGTGTGTGTGTGTACAGTCC
3' ss Score
7.66
Exon sequences
Seq C1 exon
ATGCCAGTCTGCTGACGTCTCCTCAGACAGAAGAGCTGTTTGACCTGATCGCCAGCACTCAGAGCCGCCGTCTGGATGACCAGCGGGTGAACGTCAGTAATCTGCCCGGACTCAGGATTACCCACAATAACCTGGGGCACCTGTGCGGAGACGGAGACCCTCAGGAGCCCAGCGACGACTTCTTCAACATGCTCATCAAGTGCCAG
Seq A exon
GTCAGAGGAGACACACACACACACACACACACACACACACACACACACACACACACACATTAGTCCACATGGGCCTAGTGGTTAAACTGGGTATTGCAATCCAAATTCAAAACATTGGATTAACATGCATCCAGAAGGGGGTGTTGTATGTTCATTCACCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACAG
Seq C2 exon
TCCTCCAGGATAGATGACCAGCGCTGCTCTCCTCCAGAAGGCGGTCCCCGGGCCCCGACAGTCCCTGATGAGGATTTCTTCAGCCTCATCCAGAGAGTGCAGGCCAAGCGGATGGACGAGCAGCGCGTGCGGCTCCCGGAGGACCAGCAGGAGTCTGGGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000054874:ENSDART00000011955:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.623 A=NA C2=0.830
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=33.3),PF0218812=GoLoco=PU(47.8=15.9)
A:
NA
C2:
PF0218812=GoLoco=PD(43.5=18.5),PF0218812=GoLoco=WD(100=42.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCTGACGTCTCCTCAGAC
R:
GCACTCTCTGGATGAGGCTGA
Band lengths:
299-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]