HsaINT0117839 @ hg19
Intron Retention
Gene
ENSG00000122417 | ODF2L
Description
outer dense fiber of sperm tails 2-like [Source:HGNC Symbol;Acc:29225]
Coordinates
chr1:86820213-86820542:-
Coord C1 exon
chr1:86820457-86820542
Coord A exon
chr1:86820376-86820456
Coord C2 exon
chr1:86820213-86820375
Length
81 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TATATGTTTTCTGTAAAAAGAAA
3' ss Score
3.35
Exon sequences
Seq C1 exon
GTTGATGGAAATCACAATCTTCTGACAAAGCTTTCTCTGGAAGAGGAAAACTGTCTTATTCAGCTGAAGTGTGAAAACCTTCAACA
Seq A exon
GTAAGTATTAAATTACTTAACATTGCTGCTGCATATTTCTCTGCACATTAACATTTTAAAATATATGTTTTCTGTAAAAAG
Seq C2 exon
AAAATTAGAACAGATGGACGCAGAAAATAAAGAGCTTGAGAAGAAGCTGGCAAACCAAGAAGAATGTCTTAAGCACAGCAATCTTAAGTTTAAAGAGAAATCTGCAGAGTATACAGCATTGGCCAGACAACTGGAAGCTGCTTTAGAAGAAGGAAGACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122417-ODF2L:NM_001184766:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.155
Domain overlap (PFAM):
C1:
PF059116=DUF869=FE(19.2=100),PF127182=Tropomyosin_1=PU(8.9=37.9),PF041117=APG6=PU(16.9=79.3)
A:
NA
C2:
PF059116=DUF869=FE(37.0=100),PF127182=Tropomyosin_1=FE(43.9=100),PF041117=APG6=FE(39.7=100)
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:
TCAGCTGAAGTGTGAAAACCTTCA
R:
AAAGCAGCTTCCAGTTGTCTG
Band lengths:
171-252
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
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)