MmuINT0112730 @ mm9
Intron Retention
Gene
ENSMUSG00000028256 | Odf2l
Description
outer dense fiber of sperm tails 2-like [Source:MGI Symbol;Acc:MGI:1098600]
Coordinates
chr3:144790974-144791970:+
Coord C1 exon
chr3:144790974-144791045
Coord A exon
chr3:144791046-144791853
Coord C2 exon
chr3:144791854-144791970
Length
808 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
CTGTTATTTTTCTTTTACAGGAA
3' ss Score
13.25
Exon sequences
Seq C1 exon
AACCTTGAGGAAAAAGTACTTGAAAAGGAGACCTATATCCGTGAACTCTCGTGTCTGTTTCAGAATGAAAAG
Seq A exon
GTAAACACAGTTTGAGCTTTTGACTTTGTTATATTTTGTTAGCATTGGCCCCCTTTCCCTCCCTCTCTCCCTCCCTGTTTTCATATCCTCAGTTGTAATCACAATAAAGGCTTTTTGACAGTTTAGATCAGTATTAACTTATATGTATCAGATAGAACATCTTTTTAAGTTTTTGTTGGTTTGTTTGTTCTTTGGGGGTCGATTTTGCTATTTAGTCCACTTGGCATAAGTTACTACAAATTCTATCCTTCTGGTTTGGGTGATGGGTCTGTCGGAAGACCAGGACCTGTGATTAGTTCCTAAAACTCTTGTAATTCTGGTCCTGGAAAGAGCAGAGATGGGAAGGAAGGTTCCTGTGACTCACTGGCCAGCCAGACTGCTTTAATTGGAGAGCTCCAAGCCAGTGGGAGAGCCTGTTCAGGGGAGCTGGATGACACCCACATTGTCCTGTGTGCTCTAATACGTCTTATGTGTGTGTCCCCAAACTTGTACACAGCTGAAAACATATAACTTATATTTTATTTTTGGTAAGATTAAGTAGTTGGTGTTTGGAGGAAGACTTTTGACATACTTAAGTCTTCCTTGGGAGGAGAGATGGGAAGATTTGTAGGAGATGATTAGAAGGCATTGAATACATGTGCAGATTTTACCTGCAGCTTTTATGAAGTACATCTATGAGGCCACAGTATATGGAAAGGAATGTTCTATTTTACCATCTGCTCAGGTTGAGTCTGACTGGGGGGGGGGGGGGGTCTAACAATGACAGACAGAGGGAACACAGTAACTTGCTGTTATTTTTCTTTTACAG
Seq C2 exon
GAAAGTGCTTTGAAAGCAAACAGGCTTTCTCAATCAGTCAAAGTAGTGCACGATCGTCTACAGCGCCAAATTCAGAAGAGGGAAGCTGAGAATGAAAAGCTAAAAGAACATGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028256-Odf2l:NM_001162538:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.112
Domain overlap (PFAM):
C1:
PF039809=Nnf1=PU(0.1=0.0)
A:
NA
C2:
PF039809=Nnf1=FE(84.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCTTGAGGAAAAAGTACTTGAAA
R:
TGTTCTTTTAGCTTTTCATTCTCAGC
Band lengths:
182-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: