HsaINT0117842 @ hg19
Intron Retention
Gene
ENSG00000122417 | ODF2L
Description
outer dense fiber of sperm tails 2-like [Source:HGNC Symbol;Acc:29225]
Coordinates
chr1:86850359-86851273:-
Coord C1 exon
chr1:86851141-86851273
Coord A exon
chr1:86850485-86851140
Coord C2 exon
chr1:86850359-86850484
Length
656 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
TGGTTCTTATAATTTGTCAGGCG
3' ss Score
4.03
Exon sequences
Seq C1 exon
CCTGAAGCAGGACATTCTAAATGAAAAGACTGAATTGGAAGCAACACTTAAGGAAGCGGAGTTGGTAACTCATTCTGTAGAATTGCTTTTGCCACTATTTAAGGACACCATTGAAAAGATTAATTTTGAAAAT
Seq A exon
GTGAGTGACTTATGAATATATAATAAAATGAAAAGCTAGTATAATACTCAGAATGCATTAACTGAGGTCTCATATCTTATATAGGTATGCTCACTTATGAGTATTTCATACCAAAAATGAGGGTTTATCAGAATTCTTTATTCCTGTGTCATTAACTACAGTTCTTTTCCTGAAAGATAATCTCAGCATACACCTGATAAGAGGCTAAGCTAGAAACAATATATTTTGGATGTTTGAATTACCCGGAGTTGAACTAGAAAATCAGCTTTTCTTAAGAGTGAATTTTAAACTAAAATCTTCTGAGAGATGAAATATATCTGTTTCTATAGTATTATTTGGAGTAGATAACTATTTTTAAATTTCAGCATATTAAAGTTTAAATTAGGGACAAACAGTAGATTATCTTCTATAACTTTTATTTGAATAAAAGCCTAAAATGCTTTTAGAATCTAAGCTCTTATTTTGATTTCATTTTATTTTAATGTACTGTATAACAGATCCAATTTACTATTGACAAATTTCGTAGCATTTATTATTACTATGCACAAAAGAATGATTTTGTTTAGTAGGAAAAAATATTGTTTGATAATATATTTTAGAGGGTTTTATTTAATGCTGTGTCTTAAAATGTGTATGTGGTTCTTATAATTTGTCAG
Seq C2 exon
GCGAATCTTTCTGCATTGAATTTGAAGATTTCTGAACAGAAGGAAATATTAATAAAAGAATTAGACACCTTCAAAAGTGTAAAACTAGCTTTAGAACATCTTCTTAGAAAGAGAGACTACAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122417-ODF2L:NM_001184766:3
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:
PF101334=RNA_bind_2=PD(93.5=64.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGCAGGACATTCTAAATGAA
R:
AGTCTCTCTTTCTAAGAAGATGTTCT
Band lengths:
250-906
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)