HsaINT0117820 @ hg19
Intron Retention
Gene
ENSG00000136811 | ODF2
Description
outer dense fiber of sperm tails 2 [Source:HGNC Symbol;Acc:8114]
Coordinates
chr9:131221846-131222578:+
Coord C1 exon
chr9:131221846-131221936
Coord A exon
chr9:131221937-131222436
Coord C2 exon
chr9:131222437-131222578
Length
500 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
ACGCCAATCTGCATGCCCAGTTG
3' ss Score
2.72
Exon sequences
Seq C1 exon
GTTTCCATCGTGTGGGAAGAACGGAGTAACGAGTCTCACGCAGAAAAAGGTCTTGAGAGCACCTTGTGGCGCACCCAGTGTAACTGTGACG
Seq A exon
GTAGGTGATGCACTCACGTAGCAGCCCTCTTTGGTCACCTTGCTAAAAATGCTTTTGCACACCGTTTCTAGGAGGTGCCTTACCCTGCTGGGCACCATCGCCGCCCAGTTGCTCTGCTAGGTGCTGTTATACATACTCTGCTGATTTTTAATTATGATCATCATTTTTGCCTGTGGTGAGGCTGCCGGGTGTGAGGAAATTGTCTTAGACTTATTCTTCCAGCCAAATCCTAAAATCTTGAGATTTTTAAAATAAAGGAAAAGAAAAAGAAGAGAAAAAAAAAGTTTAAAGAATGAGGGGAAGGATAAGAGCTGGTGGTGGTTGAGGGGTTTGTAGCTGTGGTTCTGCCTTGCTCATGTTTTCTTTAGAATCTAGACAGCCTTCTCATCCTTAGGATTTCCTTCAGCTTTCTGTTTTCCTGTTCTTTGATCTGCCTGCTCTCTGATTTATTCTGCACCCTGAGCATTTTGTGTGTTTCCCACGCCAATCTGCATGCCCAG
Seq C2 exon
TTGAGATCACTGTGTAGAAGGATCCGCCTGCTTTCCGCTGTGCTTCACTAAATCCAAGGAGGAGCTGTGCATTCCAGCAGGTTTAGAGGAGATCCAGCCCTAAGAACCCTGGGGCCGGCGTCTGGGATCTGTTCTGGAACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136811-ODF2:NM_002540:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.674 A=NA C2=0.000
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:
GTTTCCATCGTGTGGGAAGAAC
R:
CCGTTCCAGAACAGATCCCAG
Band lengths:
233-733
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)