DreINT0074566 @ danRer10
Intron Retention
Gene
ENSDARG00000017311 | gpsm2
Description
G-protein signaling modulator 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1169]
Coordinates
chr2:45639182-45639687:-
Coord C1 exon
chr2:45639516-45639687
Coord A exon
chr2:45639421-45639515
Coord C2 exon
chr2:45639182-45639420
Length
95 bp
Sequences
Splice sites
5' ss Seq
AATGTTAGC
5' ss Score
-6.48
3' ss Seq
ATGTTTTGTTGTCTACCTAGCAT
3' ss Score
6.42
Exon sequences
Seq C1 exon
CATGGAAGTACAGACATGTTAGGAGACGAGGGCTTCTTTGACTTGCTGAGTCGATTTCAGAGCAACCGGATGGATGACCAGCGCTGTGCCATACAAGATAGCAAGAGCCACCTGTCTGTTAACTCCATCAGCGCTTCTCCACCCACCACACCACCCAGAACCATCAGGAAAT
Seq A exon
GTTAGCTTCTCTTCTTTTACAGTGTTTTCCTTAATTCAACAATCAAGTGGCTTTTTAAATCAACCTACATGCCTGATGTTTTGTTGTCTACCTAG
Seq C2 exon
CATTCTCAGAGTCAGCTGCAAGTCCAGGTCAGGAGCCGTTTCTCAGACTGCTGGCGAATGCTCAGGGCAGGAGGCTGGATGAGCAGAGGGCAGGAACGGGGAACAGTTTGCCTGGCCTGCGCACCCTGAATGAACACAGCAGCACCAACAACAGACAGATGATCCTCAGCCAGGTCATGGCCAGCACAGACGCCACCGAACCCGACGACCAGTTCTTTGACATGCTCGTCAAGTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017311:ENSDART00000024034:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.669 A=NA C2=0.945
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=39.7)
A:
NA
C2:
PF0218812=GoLoco=WD(100=28.8),PF0218812=GoLoco=PU(47.8=13.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACCCAGAACCATCAGGAA
R:
TGTTGGTGCTGCTGTGTTCAT
Band lengths:
173-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]