HsaINT0071261 @ hg19
Intron Retention
Gene
ENSG00000125734 | GPR108
Description
G protein-coupled receptor 108 [Source:HGNC Symbol;Acc:17829]
Coordinates
chr19:6736603-6737304:-
Coord C1 exon
chr19:6737001-6737304
Coord A exon
chr19:6736723-6737000
Coord C2 exon
chr19:6736603-6736722
Length
278 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAT
5' ss Score
5.37
3' ss Seq
GCCTCCTTGGTCTCCGGCAGGGG
3' ss Score
7.33
Exon sequences
Seq C1 exon
TTCGGTCCTCCGGATGGAGTTGCCGGGTCCGCCTCGCTGGGGTCGGCCCCCTCCCTTCGGGGGCGAGGCTCCATCTCTTGGGGACTACACCCCCCTTCCCCCCAACTGGGTCTTAGTCCTTTAAATTCTTGGAATCACTTTTGGGGCGCTAGAGACCCTGGAGCCGCACAGCGGGGTCCTGGGGGGCTATAGAGTGGGGTCCTCTGGGCACTTAATGGGATTTGGGGGGTTCTGTTGAAATATTGCTGGGAGCTCAACTGGAATGTAAAAGTTCTTCGGGAAGGTGAAGGTCAGGCACGCCGAG
Seq A exon
GTGAATAACTGTTCTCCGGGCGGTGCTCACCCCAGTGGGGAGACTTCCAGGTGCCGCAGGATCTCTGTTCCTGGGTTCTCAGAACAGAGGTCGGAGAATGCAGGACCACCCTTCCCCTGCAGGGAGGAAGTCCCTCTCAACTTTCTCTTGTCATCCTCTGGGCCTGTCCTAAATAGAGGGGTACCAGGAGGCCCTTCTGGAGGTCCTCGTGCCAGACCCCTGGGGCTGGGCAGGCGGAAAGAGGTCTGAACTGCCTCTGCCTCCTTGGTCTCCGGCAG
Seq C2 exon
GGGGAGAAGCGAGCGGACATCCAGCTGAACAGCTTCGGTTTCTACACCAATGGCTCTCTGGAGGTGGAGTTGAGCGTCCTGCGGCTGGGCCTCCGGGAGGCAGAAGAGAAGTCCCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000125734-GPR108:NM_020171:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATCACTTTTGGGGCGCTA
R:
CAGCAGGGACTTCTCTTCTGC
Band lengths:
294-572
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)