DreINT0074558 @ danRer10
Intron Retention
Gene
ENSDARG00000054874 | gpsm1b
Description
G-protein signaling modulator 1b [Source:ZFIN;Acc:ZDB-GENE-110203-5]
Coordinates
chr5:70970872-70972569:-
Coord C1 exon
chr5:70972446-70972569
Coord A exon
chr5:70970988-70972445
Coord C2 exon
chr5:70970872-70970987
Length
1458 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TCTCTGCTTGTTGTTTTCAGCGT
3' ss Score
10.18
Exon sequences
Seq C1 exon
GATGAATCTGTCTCTGGTGAAGGATTTGGGGGATCGGGCCGCTCAGGGAAGAGCTTTCGGGAACCTGGGTAACACTCATTACCTGCTGGGCAACTTTGTGGAGGCCATCAAGTTCCACCGAGAG
Seq A exon
GTAAAACACTGACCACCCTGCTGAAAGAAACAGCTCAAACCAGCTTGGGCTGGTTTTAGCTGGTCGACCATTCTGGTTTTAGAGGGGTTTTGGCCATTCCCAGGCTGGTTTCCAGCCATTTCTAGCCTGGACTTAGCTGGTCAGGCTGAGAGATGACCAGCTAAAACCAGCCTAGCCAGGCTGGGAGTCCAGCCAAACCCAGATATGTCCACCTTAAACCAGGCTGGTCTAGCTGGTTTTAGCTGGATTTAGCTGGTTATTTTCTAGCCTGACCAGCTAAGACCAGACTAGAAACCAGGCTGGAAATGACCAAAACCCCTCTAAAACCAGGCTGGTCGACCAGCTTAAAACCAGCCAAGCAGCCTAGGCTGGTTTAAGCTGGATTTTTCAGCATAGCACAGACTCATTCCTTAATTACATTTTACATTTCAAGCATTTTCCATTGACTTTCCTTAAGCTGGAATGATATGTAGCCTATAATTTATAGTAAACTTAGTCCATTGTTAATGTAAAATAATGTGTGATCGGGAACTTTTGATTCTGTTGCGTGTTGGACGTGAAATAGATTAGAACTACAAACGCGGGAGTAAAAGTGTAAACAAACTACAAACATGGCGGACGCGCGAGACCAACCGTCAAGTAGCGAGGCTTCGGTAAAGTTGTTTGAATGACTGTTAATTAATGTGTAGCCCTCTGGAAAACAATTAAATCGCGCTTTCCGTGTTCTAGTTTGTCTGTAACAACAACGTGAACTTCTATAAAGACGTGTTTAATCATTATAACTGCTGAATTGTGCACTGAGGAGATTTCTCTGCTTGAAAGACTCGCGAATAGCAGATTAATACACAGCTAAATCTTCAATATAGTGGGTAACGTTTGCTAAATATTAATGAAACGTGGATAATGGGTAGAGAATTTTGACAGGAATGTAACTAACATAGCGGTCCGTCAATAAGGACGTTTGTATAAGGGATACAGCTGCAGGCGTAAATAACGAGGATTATTTCTATTATATTTTTTAATTACCCATTAATTGTATTTTATTAACGTCTACCCCCACACCAACCCTAAATCTAAGCATTACAGAAATGTAAAAACAGTGAATATACCGAATATTGTAAATTTCATTTATTAAATTACCCATGAAATTGCATTTATGTGTACCTTTGGCTGTAAATCCAACAATAAGGGTAATGTAAAAAACTGTATACCAAAATGTATTCATGTTATTAATTAAATTAACCATTTAATTGTATTTGATTAACGTCTAGCCCCAACCCAACCCTCGCAGTAATGTAAAAGTAAGTTATGCTACATTGATGTGAGCATCCGCAGCTGTATCCCCTGTAGACCTCCCTTTGTTACACATTCAAAAGGATGTCATTTTTCTTTACTTCTATAATGTAGTATAAGTGTACGAATTGGGATGCAGCATCAATCTCTGCTTGTTGTTTTCAG
Seq C2 exon
CGTCTTGCCATTGCGAAGGAGTTTGGCGATAAAGCAGCAGAGCGAAGGGCTTACAGTAACCTGGGAAATGCTCTGATATTCCTGGGCCAGTTCAGCGCCGCCACTGAATACTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000054874:ENSDART00000011955:5
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=PU(40.0=71.4)
A:
NA
C2:
PF134241=TPR_12=FE(50.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATCTGTCTCTGGTGAAGGA
R:
CTGTAGTATTCAGTGGCGGCG
Band lengths:
238-1696
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]