HsaINT0025098 @ hg19
Intron Retention
Gene
ENSG00000176919 | C8G
Description
complement component 8, gamma polypeptide [Source:HGNC Symbol;Acc:1354]
Coordinates
chr9:139840537-139841018:+
Coord C1 exon
chr9:139840537-139840644
Coord A exon
chr9:139840645-139840916
Coord C2 exon
chr9:139840917-139841018
Length
272 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGT
5' ss Score
9.94
3' ss Seq
GAACCCTGTCTGCCCTGCAGCCC
3' ss Score
8.01
Exon sequences
Seq C1 exon
CCCGAGACGCCCGAGGGGCTGTGCACGTGGTTGTCGCTGAGACCGACTACCAGAGTTTCGCTGTCCTGTACCTGGAGCGGGCGGGGCAGCTGTCAGTGAAGCTCTACG
Seq A exon
GTATGTGGGGGCCAGCCTCTGTGACCAGGCAGGCGCTCAAGCTCTGCACACTCACTGGGCCACCCCGAGGGGCTGGGTGAGCCCATGGGGACACACTTCCTTTCTCCCATCCTGATCCTCCTGCTAAGCAGGGGCCCAGGGAGTAGTGACAGACAGGCCTGGTGTGGGAGCAGGGAGAGGGCCCCGAGGGGGCAGGGGACACACAGACCCCGTTTCCAGAGCCCTCCACGCCGCCTGGTGCCAGGACCCCAGGAACCCTGTCTGCCCTGCAG
Seq C2 exon
CCCGCTCGCTCCCTGTGAGCGACTCGGTCCTGAGTGGGTTTGAGCAGCGGGTCCAGGAGGCCCACCTGACTGAGGACCAGATCTTCTACTTCCCCAAGTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176919-C8G:NM_000606:4
Average complexity
IR-S
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:
PF0006118=Lipocalin=FE(25.9=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(24.5=100)
Main Inclusion 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:
GGCTGTGCACGTGGTTGTC
R:
TGGGGAAGTAGAAGATCTGGTCC
Band lengths:
188-460
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)