HsaINT0039815 @ hg38
Intron Retention
Gene
ENSG00000092758 | COL9A3
Description
collagen type IX alpha 3 chain [Source:HGNC Symbol;Acc:HGNC:2219]
Coordinates
chr20:62826767-62827294:+
Coord C1 exon
chr20:62826767-62826820
Coord A exon
chr20:62826821-62827240
Coord C2 exon
chr20:62827241-62827294
Length
420 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
CCCCACCTCATCCTTTCCAGGGT
3' ss Score
8.77
Exon sequences
Seq C1 exon
GGTCCCATTGGGTTCCGAGGGCCGCCTGGGATCCCAGGAGCGCCTGGGAAAGCG
Seq A exon
GTACGTGTGTCAGTGGACGGTGGGCGCCATGCCTCGTGACCTCTCTCCCCTTTCCCTCTGCTCCTCTCAGACGCCCCCAGCCCCACTGGGGCCCCTCTTCTGTGGCTGAGCTGTTCCCTGGACACCCTGGGAGGGCTTGTGGCATGGGTACGGGGGTGCTTACCAATGGAATCCATTCTTTGTGAGACATTCGCCTCCTTTCTGGTTCTGGACGTGGAATGAGGGGTCACCATCGTCCCTCTGGCACCTCCAGCCATCTCTGACCACTCCTGGAGGGCCCAGGCCTGGAGGGGCCCCCATCCCACTCTCTGACCACTCCTGGAGGGCTGTCCCCCGCCCGGGCCTGGAGGGGCCCCCGTCCTACTCTCCGACCAACTCCATGGTGTTAACTCTGTCCCTGCCCCACCTCATCCTTTCCAG
Seq C2 exon
GGTGACCGAGGCGAGAGGGGCCCAGAAGGGTTCCGCGGCCCCAAGGGTGACCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092758:ENST00000343916:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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