MmuINT1024829 @ mm10
Intron Retention
Gene
ENSMUSG00000026790 | Odf2
Description
outer dense fiber of sperm tails 2 [Source:MGI Symbol;Acc:MGI:1098824]
Coordinates
chr2:29922213-29923639:+
Coord C1 exon
chr2:29922213-29922371
Coord A exon
chr2:29922372-29923538
Coord C2 exon
chr2:29923539-29923639
Length
1167 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CTGCGTTCCTGTCATTTTAGATC
3' ss Score
9.12
Exon sequences
Seq C1 exon
GCCCGTCGGCAGTTCCAGTCACAGCTGGCTGACCTACAACAGCTGCCTGACATCCTCAAGATCACGGAGGCCAAGCTGGCTGAGTGCCAAGACCAGCTGCAGGGCTACGAGAGGAAGAACATCGACCTCACAGCCATCATTTCAGACCTGCGCAGCCGG
Seq A exon
GTAAGGGACTGGCAGAAGGGATCCCACGAACTGGCCCGAGCAGGGGCCCGCTTACCGAGATGAGCTGCACGCCCCCCAAGGGAGGACCACTTCCTTTTTCTTGGCTGCCGATTTCTGAAAGGAGTGAGCTATCATCAGTGCTGTGAAATAAAAGTCTGGTGTGCCAAACCCTGCGTGTTGCACAAAGTGATTATAGCTTATAGACTCGCCACTGCCCTGCTATGGCCGGCCACGCTCTGCCTGCTTCTGCCTTGCATATCCTGCCGCCGTCCTCCGACCTACAGCCACAGAGAGGACACGCAGAAGATCTGTGGCACCCACCGCTTGTCCACTGTTCCATTTTTCTCAAGCTTTAACTGCCTCTCCTTGTTTTCCACAGATCTACTTACCTAGGATTCTCTTCTGAGAGAAGCAAGCAGCCCCTTTGTCCAGAAGCTGTCTGTCTCTCAGTTTCTGGAACCGTACCCTGCACTGTTCAAGACATGACACAGAACTCACTTAAATCTGACATCGGCGGTCTCTTATCTTTTCTCTTTAAAGTCTTTCTTTTGTTTGCTTTTGTTTTTTTGAAACAGGCTGCTTTGAAATTACTGTGTAGCCAAGAATGATCTTAAACTCTTAATCCTGCCTCTACCCCCAAAAGTGCTGGAGTCTCCTGACGTGTCAGCTTCTGAGCACCCACGCTGCCCCATGGGCTCTTCCTTCAGTAACACCCTGAGACCTAGAAGGGAAGGAAACAAGAGTCCCTATGTCACAGAGATGCTCAGTATTCACAGGGATTTGAATCCATGGCTTTCAGACTGTTGAATGTTCTTGGGGTCTCTTGAGCTCTCGCATAATGCAGGATTGGTAAAGCTTGGGGTTTGTTGTACAATGTGCTGCTAACGCCCCATGTCTACTACAGTCCCCGTGGGGCTTCTGCAGCCCTCTTGTCATCGGGAACCAGCATCTAACCTGTGTTCTCCCATTGTGAGGGGGTGGAGCGGGTCTGTCCCATCCCTGTTCTCTTATCTCTTCCAGGTTGTTGGTTGAATATGGGACACCTGCTGAGGGCAGTCTGCCTCTTTCCTGGGTGTGGATGCTGTCACAGGAGAACGGGGAATCCCTTCATTCCTCAACCTTACTGGAAATGCCCTCATAAACCAGACTGCGTTCCTGTCATTTTAG
Seq C2 exon
ATCGAACATCAGGGGGACAAGCTGGAGATGGCGAGAGAGAAACATCAGGCTTCCCAGAAGGAAAATAAACAGCTGAGTCAGAAGGTGGATGAACTTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026790:ENSMUST00000046571:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.882
Domain overlap (PFAM):
C1:
PF0003816=Filament=PD(16.5=31.1),PF121283=DUF3584=PD(40.0=83.8)
A:
NA
C2:
NO
Other Inclusion Isoforms:
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGGCAGTTCCAGTCACAG
R:
CTCAAGTTCATCCACCTTCTGACT
Band lengths:
254-1421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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