DreINT0074567 @ danRer10
Intron Retention
Gene
ENSDARG00000017311 | gpsm2
Description
G-protein signaling modulator 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1169]
Coordinates
chr2:45638034-45639420:-
Coord C1 exon
chr2:45639182-45639420
Coord A exon
chr2:45638892-45639181
Coord C2 exon
chr2:45638034-45638891
Length
290 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TTTTTTCTGGTCTCTCTCAGGGG
3' ss Score
10.58
Exon sequences
Seq C1 exon
CATTCTCAGAGTCAGCTGCAAGTCCAGGTCAGGAGCCGTTTCTCAGACTGCTGGCGAATGCTCAGGGCAGGAGGCTGGATGAGCAGAGGGCAGGAACGGGGAACAGTTTGCCTGGCCTGCGCACCCTGAATGAACACAGCAGCACCAACAACAGACAGATGATCCTCAGCCAGGTCATGGCCAGCACAGACGCCACCGAACCCGACGACCAGTTCTTTGACATGCTCGTCAAGTGTCAG
Seq A exon
GTATGACGTGAATAAACACGTGGAACCAAACACAAAATGAGAAAAAATAAGTGTAGACAAACAGTCACTGATTAAAGCTTAGTTCACCCGAAACTATAACTTCACACTAGCTAAACGCACCGTACGCTGACATCAAACGAACCTCAGTGCGGACCAAAAGTGCTAGTGTTAAAGCGCTCTTGGTGTTTCAAAGTTCAAAAGGCTCAATTTTTCAGTCACTATCTGTCAGAAGTCATTTTGTTCTGTTACACCATTTATCTCATTATCTATTTTTTTCTGGTCTCTCTCAG
Seq C2 exon
GGGTCCCGCCTTGAAGATCAGAGGTGTGCCCCTCCTCCGCCCTCCACTCGTGGCCCCACCGTCCCAGATGAAGACTTCTTCAGCCTCATCATGCGCTCACAGGCCAAGAGGATGGATGAGCAGAGAGTCACGCTTCCCTCCTGCCGCTGATCAAGCATGCACTTATTCTTCTGAGCTCCGTATCAAGAAATGAGCTCTCTTTGATGCACATTACAGACCTCACTCTGGTAAAACAGTGAAGATCACGTAACATGCCATCAGTCTGAACTGTCCTGTCTGCTACATGACTATGAGTGGCGTATTATTTACACTTTTACTAATCAACTCTGGGAGGGGGGAGAGGTTTTTATGTAAATAACACTTTTAATTTTGATTTGGATTGACGCTCTTTGTACATTTTGCATTTATAATGGTTTTAAAGGATGTTTTAGCTCGGCATGAATTGCTTTGGTTATGATCACTACAGTAATTCATACAAATGTATCTTTTGATGCAAAACTGCAGGTTTGATTGTATTTATTTAACATTTTTATTGTTGGTAGTTGCCTAATACTTAATATTAGATTTGTATTTGTGACAAATAACTTTGTCTTTTTTGTATTATCACGTTTAGTTTATAAAAGAAGTGGTTAAACTTAAGTGTCCAATTGGAAGATTCACTACAGCTGTATAGCAATAAAACCTGTACACAAACATTTCACATTTAGTTTTTCAAATGCTTTATTAGACAAGATGTAAGCACAGTAAACAGAATGTTTTTCACAGGCAGGCAGATCATTTAAATGTTCCTTATTTTCAAAAATTAGTCATGAAATATCATGGGATATTAAAATGTCCATTCCAGACACTAAAGGTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017311:ENSDART00000024034:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.945 A=NA C2=0.915
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=28.8),PF0218812=GoLoco=PU(47.8=13.8)
A:
NA
C2:
PF0218812=GoLoco=PD(43.5=20.0),PF0218812=GoLoco=WD(100=46.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCTCAGACTGCTGGCGAA
R:
GCGCATGATGAGGCTGAAGAA
Band lengths:
298-588
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]