RnoINT0067121 @ rn6
Intron Retention
Gene
ENSRNOG00000018666 | Gpsm1
Description
G-protein signaling modulator 1 [Source:RGD Symbol;Acc:628682]
Coordinates
chr3:3775814-3776268:+
Coord C1 exon
chr3:3775814-3775949
Coord A exon
chr3:3775950-3776125
Coord C2 exon
chr3:3776126-3776268
Length
176 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TACCTCACTGCTGCCTACAGGTT
3' ss Score
6.8
Exon sequences
Seq C1 exon
GACCATTGGCGACCGCATGGGGGAAGCCAAGGCCAGTGGGAACCTGGGCAACACACTCAAGGTCCTGGGCCGATTCGATGAGGCAATTGTCTGTTGCCAGCGACACTTGGACATTGCCCAGGAGCAGGGGGACAAG
Seq A exon
GTGAGAGTGGTTGGACCCTTGGATGGGGGTGTAGAGGGCAGAGGGTAGAGCTGGATTTGCACTTCCTCGGGACTCAGCAGGCCTGGGGACTAGAGCGTATCTCCTGCATGTACACCTTGGAGGGAGTTCCCTGAGGGACTATAGAACATGCCTCTATACCTCACTGCTGCCTACAG
Seq C2 exon
GTTGGGGAAGCGAGAGCACTCTACAACATTGGAAATGTGTACCATGCCAAGGGCAAACAGCTATCCTGGAACGCTGCACAGGACCCTGGGCACCTGCCACCTGATGTCCGTGAGACACTGCACAGGGCCTCTGAGTTCTATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018666:ENSRNOT00000067840:3
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=0.229
Domain overlap (PFAM):
C1:
PF134241=TPR_12=PU(63.5=87.0)
A:
NA
C2:
PF134241=TPR_12=PD(33.3=43.8),PF134241=TPR_12=PU(18.3=22.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGCCAAGGCCAGTGGGAA
R:
TAGAACTCAGAGGCCCTGTGC
Band lengths:
254-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]