MmuINT0001243 @ mm10
Intron Retention
Gene
ENSMUSG00000026809 | Spaca9
Description
sperm acrosome associated 9 [Source:MGI Symbol;Acc:MGI:1917237]
Coordinates
chr2:28692080-28693059:-
Coord C1 exon
chr2:28692912-28693059
Coord A exon
chr2:28692153-28692911
Coord C2 exon
chr2:28692080-28692152
Length
759 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
GTTGATTTTTCCCTTCACAGGGG
3' ss Score
8.7
Exon sequences
Seq C1 exon
GTATCCGCACGAAGTGGTTAACCACCTCAGCTGCGATGAGGCCAGGAACCACTATGGAGGCGTGGTCAGCCTCATCCCTATAGTCCTGGACTTTATGAAAGAGTGGATTGCTCATTCTGAGAAGCTGCCTCGCAAAGTGCTGCAGCAT
Seq A exon
GTGAGTGAAATCCCGGGTAACCTGGCAACCGCAGCACCAGCCACTACCAGACCTGCCCAGCCCACGGTTACCCAGCAGTGGTTAGGAAAACACAAGTATAGGCAGCTTGCAAAAGAGAGCATCAAACCTAGTGGGAAAGACAAAGACACCCCGAGACCACCCTGGAGGCCACCTGGTGGGAAACTGTAACTGCTGTCAATGTACTTGGCTTCCACTGGTCATCCATTCTCGCTAGGGCCAATACACTATTGAGAATCTCTCTCTTGCCTTTCACTTCTAACATTTCCGCCTCTTGACCTCCGTGTTGATGAAAGGATCCCCTCTCATGGAGCTGCCCAGACAATATGGTGTTGGCAGGGTGCGTCCCAGAGGAAGGACGATGTGCTGATGCCCAGGCCTCCTGCCCACACTGTGGCCTCTGGCTCTGTAGAATGCCAGCTGGAGGGGAGCCCACTTAGCTCTTTGACCCACAAAGGCAAACTGAAGATGAGCTGGAAGGTCTCTCATCAACAAGTGTGTGGATTAGAAGGCTGAGCTCACTTGTGTTCAGGTCTTGAGACCAAAATAAGGGATGTTTGCTCTTTTAGTTGAGAGAGGGAGACCATGGCAGAAGTCAGAAGAATTCTGTTTTGTGTCTCGTGAGGAGGACAAGCAGCCTGGTCTTGATGGCAGTCTAGTCTACCCACACTATAAGATGTATAATCCTGGCATCTCAGCTTGACAGATGTGAGGTCTGACTGTTGATTTTTCCCTTCACAG
Seq C2 exon
GGGACGACATAGCTTCTGTACTGTTGCTTCCTCAGGGGGAGACATTCAAGAATAAAGTGTTCTACCACTTCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026809:ENSMUST00000102877:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151201=DUF4561=FE(29.3=100)
A:
NA
C2:
PF151201=DUF4561=PD(0.6=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTAACCACCTCAGCTGCGAT
R:
TGGTAGAACACTTTATTCTTGAATGT
Band lengths:
199-958
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