MmuINT0150787 @ mm10
Intron Retention
Gene
ENSMUSG00000037617 | Spag1
Description
sperm associated antigen 1 [Source:MGI Symbol;Acc:MGI:1349387]
Coordinates
chr15:36210543-36211199:+
Coord C1 exon
chr15:36210543-36210821
Coord A exon
chr15:36210822-36211099
Coord C2 exon
chr15:36211100-36211199
Length
278 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTAATTAAATGTGGTTTTAGGAA
3' ss Score
7.13
Exon sequences
Seq C1 exon
CGGCCATGGGCAACATTCAGAAGAAGCTGATGGTCCGCCGGAGCGAGGGTGGCAGGCGGTCGCGGCGGGGCCGGACACCGGGGCCCCGAGCTGAGCAGCAGGGAGGCCTGCGAGAGACAGCGACGGCCAGCACCGGCGACAGTCACTACCCGGAGGAGCCGCGAGCCGCTGACAACCCCAGCGGCCTCAAGAGACGGGGCAACGAGCTGTTCCGCGGCGGGCAATTCGCAGAGGCAGCCGCGCAATACTCGGTGGCGATAGCGCAGCTGGAACCCACAG
Seq A exon
GTAGGCGAGCCTTGGTGACAGGTGCTGGCCCGCATTCCTTCCTGCTGACTAAGGGTACCGTGAACAATACTGGGAATGCGGGCTAACCAGGCAGGTTTGCACGGGTCTCTGTCCTACCTTCCCCGTGTGGCGGGTGCGGGGACAACTCCTGGGGAGCTCTGCAGGATGAGCAGGCTGTAGGTCTGACTGCAGTGCTGCTGAGACTGCAGTCCTGTCGTTTTGGAGAACTGTGATTTTGCTAATGGGTTTTAACTGTGTTTAATTAAATGTGGTTTTAG
Seq C2 exon
GAAGTGCAAATGCGGATGAGCTAAGCATCTTGTATTCAAATAGAGCGGCATGCTACCTCAAAGAAGGGAACTGCAGGGACTGCATCCAGGATTGTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037617:ENSMUST00000047348:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.745 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(47.4=38.3)
A:
NA
C2:
PF134141=TPR_11=FE(43.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGAAGCTGATGGTCCGC
R:
CAAGATGCTTAGCTCATCCGCA
Band lengths:
294-572
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