HsaINT0117812 @ hg19
Intron Retention
Gene
ENSG00000136811 | ODF2
Description
outer dense fiber of sperm tails 2 [Source:HGNC Symbol;Acc:8114]
Coordinates
chr9:131246980-131247753:+
Coord C1 exon
chr9:131246980-131247165
Coord A exon
chr9:131247166-131247643
Coord C2 exon
chr9:131247644-131247753
Length
478 bp
Sequences
Splice sites
5' ss Seq
AAGGTCGCA
5' ss Score
-1.61
3' ss Seq
CTTTTGTCCCGTGTTCCCAGGAT
3' ss Score
9.74
Exon sequences
Seq C1 exon
AATCTGGAGCGCAGCGGGAATCAGCATAAGGCAGAAGTGGAGGCCATCATGGAGCAGCTGAAGGAGTTGAAGCAGAAGGGAGACCGAGACAAAGAGAGCTTGAAGAAGGCCATCCGAGCCCAGAAGGAGCGAGCCGAGAAGAGCGAGGAGTATGCTGAGCAGCTACACGTGCAACTCGCTGACAAG
Seq A exon
GTCGCAGGCCCGCGGTGCCCAGCTCCTCACCTGCCCTGAGGAGGGCTGGGTGATGGCAGAGGGGTGGTCAGCCAGATGGGTAGCGGGGAGGGGTGGGTGGATGAGGGATGGTAGTGGTGGAAAGGATAGATGGCTGGGGAGGAGGGAGAGGGAGTTAAGGGGATCAAATGGGTAAAAGCTGGAGGGATGGGTGGCTGGAGATGATTGGAGGCTTTGTAGGAGAGTTCAGCCACATCAGCTTTGTGGGTGAGAATAATGGTTAAGGAAGGATTTACAAACAGGATGCATTTGATTGCTAGAAATCTGGGAGCACTAGCTGGGCTCCCACTGTTGCTTCCAGCGCCCTCTAGAAAGGTGAATTCCAGAATGAGGTTTAGGTTACCAGGGTGAGAAACCACCTAGGATGAGCCCGCTCCCAGCTCCTGGCAGCCTCACCACTGACACTAGGCTAACAGGCCCTTTTGTCCCGTGTTCCCAG
Seq C2 exon
GATCTTTATGTCGCTGAAGCTTTATCCACTCTGGAATCCTGGAGGAGCCGCTACAACCAAGTTGTAAAAGAAAAGGGAGACCTTGAGCTGGAAATTATTGTCCTGAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136811-ODF2:NM_002540:14
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.645 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0003816=Filament=PU(2.1=8.1),PF115593=ADIP=PU(0.9=2.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCGGGAATCAGCATAAGG
R:
TCATTCAGGACAATAATTTCCAGCT
Band lengths:
286-764
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)