MmuINT0112711 @ mm9
Intron Retention
Gene
ENSMUSG00000026790 | Odf2
Description
outer dense fiber of sperm tails 2 [Source:MGI Symbol;Acc:MGI:1098824]
Coordinates
chr2:29756597-29757861:+
Coord C1 exon
chr2:29756597-29756767
Coord A exon
chr2:29756768-29757700
Coord C2 exon
chr2:29757701-29757861
Length
933 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCCTGTATCCCCTTTCCAAGGTC
3' ss Score
7.12
Exon sequences
Seq C1 exon
AATCCACCTCATTGCCTGGAGATCACACCACCATCTTCAGAAAAGCTGGTCTCGGTGATGCGATTAAGTGACCTTTCTACAGAAGACGACGATTCAGGTCACTGTAAAATGAACCGTTACGATAAGAAGATTGACAGTCTAATGAACGCGGTCGGTTGTCTCAAATCTGAG
Seq A exon
GTGAGGGAGCTGCTAGGCTGCATAGCTGGTACCCTGAGGACAAGCAGGTTGGGCTAAACTGGTTAGCCTGTGGATGCTTCCCTCAGGCTGCCTCTGTGAGCCTTCCCAGGGCATCTATTTGGAGTGGTCAGCAGGCAGCTTAAGTTTCCACCATGCTGGGAGCCCTCTCTGAATACTTGGCTTTTCTGGTACTCTCAGTGGGTGGCCAGATTTGGTTCTGGTGTTAGCCCTTGTTTGTTTGTTGTGTGAGGCATCATCTCACTATGTAGCGCTGGTGGCCTCAGAGTTGAGCTGTCCTCTAGTGCCTACTGGGGGCTGCAGTTTTAGGAGTGTGCCGCTCCCTGGCTTAGTGCTTCCTTCCACCCAGATACAGTGTCTGTAAAACAGAGAGCACAGCCTGTGCTACTGAGAAAAGCTGAACAGGAGTAGAGGAGACAAAGGAAATCTCTCTTCACACGTGGCAGGGATACTTGTGGGGAGGGAGATGGGAATGGAGCTGGAAACAGCCAACACGTAGACCCCGACTTGGAAGCAGGGAGTGCTGGCATTAAAAGCCAGGTCCTGACTGCTAAGGTACCTGCGTCTTTTTAACTCTCCACTCTACTGGAGGTTCTAAGACCTGGCAAAAGGCCCTCTTACCCCATAGCCACTGTACTTTTTTTGTGACATCTTTCCTCCTGTGGCATGCCAACTGCACTACTGTTGCTGCCTGGCCCCACCCTGGCTGGCACGCATCACGCTTTGTATTCAGGTTCTTCATGTATGCCTGGAGGAGGAGGACAGGCAATGTTTGTGTGGCTGTTTACTGGGACAATGTCCAGAAGCTCCCAAACACAGAGCCCTATCACTTTCCTTAGTAGGGTTACATGTAGCAATGGATCTTCAGGGACAAGCCATCTTTTTGGCTTCCCTTTCCTGTATCCCCTTTCCAAG
Seq C2 exon
GTCAAGATGCAGAAAGGTGAACGCCAAATGGCCAAAAGGTTCCTGGAGGAGAGGAAGGAAGAGCTGGAGGAGGTGGCACACGAGCTTGCAGAGACGGAGCATGAGAACACGGTGCTCAGACACAACATCGAGCGTATCAAGGAGGAGAAGGACTTCACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026790-Odf2:NM_001113213:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.588 A=NA C2=0.724
Domain overlap (PFAM):
C1:
PF104734=CENP-F_leu_zip=PU(26.9=43.1),PF0149614=V_ATPase_I=PU(17.3=46.6)
A:
NA
C2:
PF104734=CENP-F_leu_zip=FE(58.1=100),PF0149614=V_ATPase_I=FE(34.6=100),PF108053=DUF2730=PU(6.8=9.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
ENSMUSP00000028128, ENSMUSP00000049272, ENSMUSP00000109384, ENSMUSP00000109385, ENSMUSP00000109386, ENSMUSP00000109387, ENSMUSP00000109388, ENSMUSP00000109388f6171A, ENSMUSP00000109391, ENSMUSP00000109392, ENSMUSP00000109393, ENSMUSP00000109395, ENSMUSP00000109396, ENSMUSP00000117628, ENSMUSP00000117887, ENSMUSP00000121207
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCACCTCATTGCCTGGAGAT
R:
GGTGAAGTCCTTCTCCTCCTTG
Band lengths:
328-1261
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: