DreINT0074573 @ danRer10
Intron Retention
Gene
ENSDARG00000017311 | gpsm2
Description
G-protein signaling modulator 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1169]
Coordinates
chr2:45643706-45645526:-
Coord C1 exon
chr2:45645411-45645526
Coord A exon
chr2:45643862-45645410
Coord C2 exon
chr2:45643706-45643861
Length
1549 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAT
5' ss Score
7.88
3' ss Seq
TGATTGTGTTGTGAGTGCAGGAG
3' ss Score
0.93
Exon sequences
Seq C1 exon
CGTCTGCTTATCGCTAAAGAGTTCGGTGACCGGTCTGCAGAGAGAAGAGCCTACTGCAACCTGGGAAATGCTTGCATATTTCTTGGGGAGTTTGAAAGGGCTGCAGAACATTACAG
Seq A exon
GTATATCACACGTTTAGATTGGGGTTTAATTTAGAATTTGTTTTGAGATGTACTTGAGCAGTTTTAAATTCAATATGATTTAAAGGTCGTGAAAGTCAGAGTCTTAATAGGGGTAGTTCACCCAAATTTGAAAACTCAAAACTCATTTACTCATCGTCTACTGGTTCCAAACCTGTTGAGTTTCTTTTTTGCGATGAACACAAAAGAAGATATTTTAATTAGCTCATTAGCTTCAAGTACTAAAACACTCACCTTTTTACTGCTGAACAATGCAGAAAATTGGAGTACTTTATTTTGGTTGAACTATACCATAAATTATTATCATTTTAATTCGATTTTAATTGTAAGTAGAAAACCAAAACCTGAATTGCAACATTCTAATGCTGTAATTAAACTTTAAAAGCTATGATATGAAAACCGCTTATTATTCGGTGTTGATGAGTTATTTTATGATTTCCATTTTTTTTTTCTTCTGCCATTTAGTTGTAAGAAAGTAAAGATCAAAATGGTAGTTTTACTAACCTGTTCATAGTTAAAGTTGCAGGTGTGTTTAAAATCTTTTCTTGGTATTATTGGTATTTATGTCATTAAATCAAATGTATGATTGTTTGTTTAATTTAATGTAACCTCTGTTTGAATGTTTCTCTGGTCCATTCTGTCACAAAGCATACACCAAGAAAATCTTTGAACACATTTAGTATATAAAGCTATGGAACATTTATGGACCTCTTGAAAATTCTTAATTTCAATAGATTTACATTTTGTAGTTATGTTTTTGGTTAAAATGTCGCTTTTGGTTTTACATTTCTTCCCAATCTTAAATAAAAATACCATCATTTATGGCTTTTAAACTACAAAAAAAAAAAAACACCAACACTTTTAGAAATGTTTAGTCTTAATGTTAAATGACAAGCTCCAGTGTGTTAACTTAAAGAGTGAGGAAAATATTTATTAGTCTGACCTGTTGTCTTTTTTTATTGAGAAAATGAGTAAAATTAATACTAATGTTTTACTCACTATACCTTGTTAATCCAGAGAAACTGAGAATTCTCAAGTAGTCTCTTAATTATTGTTTATTTATCTTTTTTAGTAGCAGATTTTACTAGTATGAACAAATTCCATTATTTGACTTCTAAATGCGAGTCCCGGCTGGGTCAGTTGGCATTTTTGTGTGGAGTTTGTATGTTCTCCGCATGTTGGTGTGGGTTTCCTCCTGGTGCTCCGGTTTCCACCACATTCTAAAGACATGCGCTATTGGTGAATTGATTACATTAAATTGGCCGTAGTGTATGTGTGTGCATGTGAGAGTGTAAAAGTGTTTCCCAGTACTGGGTTGTAGCTGGAAGGGCATCCGCTGGGTAAAACTTATAATGATTAAGGCGAGCCCTCATTAATAAAGAAACTAAAAATAAATGAATGATTTCAATACACATGCACATATTAAAAACATATTTTTTTCCCGGTGCAGTTCAATCAGGAATTTGTGATGCATTATTTCCTCCAGACTTATGCGGTCATGTGCCTTACAGTGATTGTGTTGTGAGTGCAG
Seq C2 exon
GAGAGCTCTACAGATAGCCCGACAGCTGAAGGATCTGGCGGTGGAGGCTCAGGCCTGCTACAGTCTGGGTAACACATACACACTAATGCAGGACTTCGAGAGAGCCATAGACTACCATCTCAAACATCTCATCATCGCTCAGGACCTCAATGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017311:ENSDART00000024034:7
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:
PF134241=TPR_12=PD(10.0=15.4),PF134241=TPR_12=PU(37.2=74.4)
A:
NA
C2:
PF134241=TPR_12=PD(61.5=90.6)
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:
TCTGCTTATCGCTAAAGAGTTCGG
R:
CTGTCATTGAGGTCCTGAGCG
Band lengths:
270-1819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]