MmuINT0112719 @ mm10
Intron Retention
Gene
ENSMUSG00000028256 | Odf2l
Description
outer dense fiber of sperm tails 2-like [Source:MGI Symbol;Acc:MGI:1098600]
Coordinates
chr3:145136588-145139894:+
Coord C1 exon
chr3:145136588-145136723
Coord A exon
chr3:145136724-145139783
Coord C2 exon
chr3:145139784-145139894
Length
3060 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCA
5' ss Score
6.28
3' ss Seq
AGGCACGTGTTTCTTTCTAGGGT
3' ss Score
7.82
Exon sequences
Seq C1 exon
GCAAATCGCTAACCTTTTGGAAGACTTGAGAAAAATGGAAACTCATGGGAAAAACTCATGTGAAGAAATTCTTAGAAAACTTCACTCACTGGAAGATGAAAATGAAGCCCTAAATATTGAGAATGTGAAATTAAAG
Seq A exon
GTAGCAAGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCATGCATGCGCGCGCGCACTTAGCAGCAAAGTTGTGGAGTGTTGGCTAATGCTCTGCATCTCGTGTCTCTCATCTTCCTCATGATATTGTATTATGAAGGTAAATAATTTCTGGATCTGTCAAGTGTATAAAGTATGTATCTGTGCTTATATTTATGTTTATCTATTTAAGTTTTAAGATTTTTAATTACATGTACAAAAAGAAGTTTAAATTTCACTTAGCAGGACAAGCTTGTAAGGCTGCACAACTTTCTCTTTGTGTCAACTTTCCAACAGCTTATTTACTTTCTAATTCCAGCAGTGGATCATCCAAAATTGCATTAGCTTTACTGCACAAAAGTTTTTGTAGGTGTCATGGTTACCATATGATACAACATCAGACTGGATCTGTGTGAAACCAGAAAGTGTGTTCTTGGCTCCTTTATAACCAGAAAGAATTTCCAACTGAGTCAAGTCTGAGGAGTAATTGGTTTATATGTGTCCCAGAGAAGAGATGGGGGAGGAAAACTTTAGACTTTCTGAAAAAAAAAAAAAAAAAGAAACCTGAGTTCTTAGACATCAGACTTGCCTGTGGCTGAACATGAGGGTGCCATTCTCAGCTCCACAAAGCAAAAATTAGAAAAGAAGTGCTTGTACCATGAAATACGTAATCGCAGAGTTCTCCCAGATTCATGTCCTTGGAAGAGAAATAACGGTTTAGGAAAAGTAGCAAGGATTTGGATGTAACTCCCTTCTCCATCCCTCCCCTAAGGAGAGAACTTCAGCAATTATGAAATTCAAAGTCCGGAATCCCATCATTTTTCTAAAGATCCCTTTCTTTGGTAACAATAGTTAAATTGTATATATCTTCCTCAGTAGTCAATCACTGAAAAGTCCATTCCAATTTCTCCTAACGTGTGAGTAGTTTAAACATCTAGTAATCATAATTATTTCAAGAAAAGGAAGCAAGTGAGCTTCTAATGCCAAGAAAAGAAAGTGTTTCATTCCTTAAAGGATGAAGGTTCCAGAAGTTCTACTTCATATTTATGTTTCTGGAAACCCATTTTCCACTCTTGTCATTGTGGGAGCTCCTCTGTATCCCTGGCTAGCCTCACTGGGCTGTTCTCCAGGTGTCCTGCTGGAGTGTCATGGCTGCTGCCCCATCTCCTGGAGCCTGTGTTGCATAGCTTAGTTCCCCTTATTTTGTTAGGCTATGTCTTCAAAATATTGTTTTAACCTTAAAAAACAGAAATTAGGAAGAAGTACATATGAAGGATTTTATGTGTGCATCTGAAAATACCTTTATTCTGCCTTCATTTTGACTTCAAGTAGATACAGCATTCCAGCATTCTTTGCTTGACTGTCTCTTGCAATTGAAGGTAACAGAAAGCAATCTCTTGCCAGTCCGATTCTTAGACTGTGGAAATGGTACTTCAAATTTATGCTGAATTCCCAAAATATTCCTTTATCGTTGCCGTGTTAACATTTCATATAGGTCTGCTGACTTGGTGTGTTTGGGGAAATGCTTTCTCCTTTCTTTTTCCATTTTCTTGGGACTGTGCTAATGCGTCATTGACTTAGACTGAAGCCTGTTTTCAGTCTCTGCTTTTGGTCAGCTTTGGGGGATAGTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTTTTGTTTTTGTTTTTTATACAGCCCAGGACCACTTGCCTGGGGAATGCGCTGCCTACAGTATGAGCTGGGCCTGGCCCTCCTTCATCAGTTAATCATGATTCTCCCTCACAGGTATCCCCACAGGCTAGCCTGATAGGCGGTTTTGCAGTTGACTGTAGACTGTGTTGACAGTAAAGGCTAATGAGGACAACTTCGTTAGAAGATACCCATAGTTTCCTTTCCTGCTCTCTGGCTGTTATGAGACACTTGAATTTTATACTCAGCTTTGCCGTCTTTTGATACATCCCAGCTCCTCTGGGGCTTACCCCATTGGACATGCACCTCAGGAAATTGACACCATGCCTATTGTTTTGCTGCTACTGCTGAGAGTAATAATGTCCTCTGCTTCTGACCCTCTATGTGCCTTCTGCTGGCATCTATGAAATTTTGGTAGGCCAACTGGTATATGCCCAAGGAGACTATTCTTGTAAGTCTTAGCATTTCAGTAGACTTTGTGCTGCTCTAAAATTCTCATATAGTTGTCTTCTGGATCCCCTTCATATTTTTATAATAAAAACATTTATTTAATGTCCCTTCAGCAGTGAGCTGAGGCAGGTAGTTAACCTGTTTCCCAAGTAGTTGCAGTTTATTCAAGCTTTGTTTACTTATAGCCTGTGTTTTCCTTAGTGGTTTAAAACCCAAAGTTGACCATATTTTACATTTCTGTGTATTTTTCTTTTTCTGCTATCTTCTATGTTCATAGTATCTTGACAGCTTACTTGCTTATACATTTCAGTATCTAATAGGTATGGTTACTGTCCACTTAGTATCGTCTATGTATTGTTTGCTCTTCCTATTTAGTCACTCATATGAGGTGTCTTTATTCCCAGGTTTACTTTGATACTGATTTTATTAAGTAGCCCCAGCTGGTCTAAACCTTGCAACAGTCCCCTGCCTGGCTCTGTAAGCATGGGGTTTATAGTCATGGGCCACTTTGCCCTGCTGCCAACTGAGATTTGAGTTAGTTTTGTCATATTCCTTTCAACTGTTATACTTTTGGTGGAGATTGAGAAGTGTTAAATGAATGTAGAAAACTTGGAATGTCAACATTATCAATTCTTCTTGTTTAGAACACAACTTGTTTTCAGCTCTTTTTATTTGTCAGTAAAAAAAAAAATCCTGTCCTGTGTACTGATTAAATTTACATGAGTATTACTCATTAATTTTAGATGGGAATTATATGCAATCAAATGATTACTCCATTGCTGTTGATGAATGAGTTATGATTTAATGATTCTTCAGCTAGGACTGCAATGCTCTGATGGTTAGGAACTCCATCAGGCACGTGTTTCTTTCTAG
Seq C2 exon
GGTACACTTGATGCCTTGAAGGATGAAGTTGCTTCTGTTGAAAATGAACTTGTAGAACTGCAAGAAGTAGAAAAACGACAAAAAACCCTCGTCGAAGGATACAGGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028256:ENSMUST00000098538:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003816=Filament=PD(21.1=50.0)
A:
NA
C2:
PF104984=IFT57=FE(32.1=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types