HsaINT0071269 @ hg19
Intron Retention
Gene
ENSG00000125734 | GPR108
Description
G protein-coupled receptor 108 [Source:HGNC Symbol;Acc:17829]
Coordinates
chr19:6729925-6731122:-
Coord C1 exon
chr19:6730998-6731122
Coord A exon
chr19:6730396-6730997
Coord C2 exon
chr19:6729925-6730395
Length
602 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGC
5' ss Score
3.73
3' ss Seq
TCCTCGCTGTCTGCCCCCAGAAT
3' ss Score
10.27
Exon sequences
Seq C1 exon
CTCTTGGTGGAGGGCTCCACCCTGGCCTTCTTCGTGCTCACGGGCTACAAGTTCCAGCCCACAGGAAACAACCCGTACCTGCAGCTGCCCCAGGAGGACGAGGAGGATGTTCAGATGGAGCAAGT
Seq A exon
GTGAGCTGGGCACCATGGGCAGGGCCGGCGGCTCTGGGGGTGGAGTAGGGGGTGGGCAGCTCTACGGGCAGGGTGGGCAGGGGGGAGGGACTGTAGCAGCCCTGGGGGCAGTGTTAGGGCAGAGCCTGCTGTTGAGAAGGGATGGAGGGGAGATGGGGGGCAGCCAGGGCAGCTGTGCAGGTGGGGACCGGACAGCTGTGGAGTACCTAAGGCCAGGCTGAGCTAGGGGTGGGGTTAGGGCCGCTAGGGAGACACCCAGGGCCGCTCTGGGGGCGGGGGTGGGCGGGGCCTAGGTAGTTCGGGTAGAACGGGTGGGGCCTGGGCTGCTATGGCAGTAAGGTGGGCGGGGCCTGAGTGGTTACGGGTAGAGTGGGTGGGGCCAGGGCTGCTGGGGGCGGGGCCTAGGTGGTTGGAGTAGAAGGGTAGGGCCTGCGCTGCTGTGGGAGCGAGGTGGGTGCAGCCTGGGTGAGTCTGGGGTAGAGTGGGCAAGGCCAGGGCTGCTGTGGTTGGGGGGAGTGGGGCGGGGCCTGAGTGGTTCCGGGTAGAGTGGGTGGGGCCTGCTGCCCTGCAACGCTAGACGCCTCCTCGCTGTCTGCCCCCAG
Seq C2 exon
AATGACGGACTCTGGGTTCCGGGAAGGCCTCTCCAAAGTCAACAAAACAGCCAGCGGGCGGGAACTGTTATGATCACCTCCACATCTCAGACCAAAGGGTCGTCCTCCCCCAGCATTTCTCACTCCTGCCCTTCTTCCACAGCGTATGTGGGGAGGTGGAGGGGGTCCATGTGGACCAGGCGCCCAGCTCCCCGGGACCCCGGTTCCCGGACAAGCCCATTTGGAAGAAGAGTCCCTTCCTCCCCCCAAATATTGGGCAGCCCTGTCCTTACCCCGGGACCACCCCTCCCTTCCAGCTATGTGTACAATAATGACCAATCTGTTTGGCTACGCCGTTGTCTTGCCTTTTTGGGGGTTGGGGTCTACACGGAGGTTGTGTTTACAATGTAGAAACCTGTTTTCGCTGTGTGTGGCGGGGGCGCGGGCACAGGGTCCGTGTCTTTGTATATTCAATAAATATTCATTCAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000125734-GPR108:NM_020171:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF068148=Lung_7-TM_R=PD(25.3=57.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGAGGACGAGGAGGATGTT
R:
TGTACACATAGCTGGAAGGGAGG
Band lengths:
342-944
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)