DreINT0074575 @ danRer10
Intron Retention
Gene
ENSDARG00000017311 | gpsm2
Description
G-protein signaling modulator 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1169]
Coordinates
chr2:45643254-45643598:-
Coord C1 exon
chr2:45643490-45643598
Coord A exon
chr2:45643384-45643489
Coord C2 exon
chr2:45643254-45643383
Length
106 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGA
5' ss Score
8.65
3' ss Seq
TATTGTGTTTTATTGTGCAGACC
3' ss Score
9.08
Exon sequences
Seq C1 exon
AATCGGTGAAGGCAGGGCCTGCTGGAGTTTAGGGAATGCACATACAGCATTAGGCAATCATGACCAAGCTATGCACTTCGCAGAGAAACACTTGGAAATCTCAAAAGAG
Seq A exon
GTACGAGCATCTAAGAACCCACTAGTTGAGTAACATTAGGAATTTTGTAAATTAACAACAAGAAAACAGAGTGACTGTGGTAATTATATTGTGTTTTATTGTGCAG
Seq C2 exon
ACCGGAGATCGTAGCGGTGAGTTGACTGCTCGCATGAACGTCTCAGATCTTCAGATGGTGCTCGGCATCAGTTACAGCACAAACAATTCAGTTCTGTCAGAGAATAAAGAGATCGACTACAACCTGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017311:ENSDART00000024034:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.282
Domain overlap (PFAM):
C1:
PF134241=TPR_12=PU(58.2=86.5)
A:
NA
C2:
PF134241=TPR_12=PD(38.2=47.7)
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:
AATCGGTGAAGGCAGGGC
R:
TGCAGGTTGTAGTCGATCTCT
Band lengths:
237-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]