MmuINT0150793 @ mm9
Intron Retention
Gene
ENSMUSG00000037617 | Spag1
Description
sperm associated antigen 1 [Source:MGI Symbol;Acc:MGI:1349387]
Coordinates
chr15:36162958-36164424:+
Coord C1 exon
chr15:36162958-36163098
Coord A exon
chr15:36163099-36164055
Coord C2 exon
chr15:36164056-36164424
Length
957 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
GCTGTAGTTTTTGTTGGAAGGTG
3' ss Score
1.97
Exon sequences
Seq C1 exon
AACTGCCGGGAAAGCGGGGTGGACCCCAGTCAAGTCCTCCTAAGCCCAGATTCCAGTGAAGCCGCCCGGCACCTGGACACTAAGAATGACACAGCACCTCCCAGCAAAGGAAGGGAGAGGAGGAGAATCCAAGTCCAAGAG
Seq A exon
GTATTTGTAGTTCACACCCTGCTGAGACTTTACACAGACTCTAAGGTTATTTCCTGTGAATTCTGCAGGACCTTTCCCTTTTTATGCTGATTGTCAATGAAAACGTTGTGAAGATAGAATTTGCCCTTTGCTGCATCATTGGCCACTATGTTTCTCAGCATGGGCCATGGATGGGGACGTCCCCGGGGACGTTGTTTTCACTGGAGCCACAGGCTATTGGCTTCTCCTCAGAGTAGACATGCAGAGATGGACAGGACTCCTCTTCAGCCAGCCCCTGGTGGGAACCTTTCCAGGCTGACTGACCTTTTTTATTGTTGTTTTGTTTCGGTCACTTAGACCAGGCTGGCCTGAAATTTAGAGATCTGCCTGTCTCTGCCTCCCAAGCGTTGGGATCGAAGGCACACACCATCTCTCTCGGCCCCTCATCTCTCTTCTTTTTTTATTCTTTAATAACCTGGGCTTCTCCAAGACAGCCTGGCCATCATATCTACCTCTGAGATGCCTAGAAAGCCACATGATTTGCTTTGCCATTAATGAAGAATGTCAGGACATAAATTACTGTACATCCATGAATGCTAACTTCCTGTTTATGGTCTGACATTCCCACTAAGAGGCAACAGGTAGGAACCCATGACTTTTCCCCTTTAAGCAAGAAAAGAGTGTTTTAAGAGACATGAAAAAATGTAGGATCATTTTGTTAAATATAAGGAAATGGAAATGAATGTAAAATTAATCCTGAAAAGGCTTTCAGATTTTTTTAAATGTAGAATAACTTCTAAAAATGTCTTATGTTCTAACTTCTTTTTCTTAAATTACGTATTTTAGAATGTATTAAAACTTTTATTTTCTTAGTATTTTATTAAATCACTGAGTGTGGCTCTCAGTTGACAGTGCTGTGTGACTTGGATGTATGTGCCTGGTATCAGTGACCTGATGTGCTGTAGTTTTTGTTGGAAG
Seq C2 exon
GTGGATGGCAGCAGTGATGAGGAGCCTGAGAGACCTGCAGAGGCCTCTGCTACCTCCGCACCTGCCAGAGATGGTGTGGAAGATGGAGGGTCTGCAGAACCAGCAGAAAAACTCGACGTCTCCAAGCCTACTAATGCCTATGAGTTTGGACAGGTCCTAAGCACTATCAGTGCCAGGAAAGATGAAGAGGCCTGTGCACATCTTTTAGCCATCACTGCACCCAAAGACCTGCCACTGTTGCTAAGTAACAAACTTGAGGGGGACACGTTCCTCCTCCTCATTCAGTCACTTAAAAGTCACCTTGTGGCTAAAGACCCCTCCCTGGTGTATGAGCATCTCCTGTATCTGAGCAAAGCAGAGAGGTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037617-Spag1:NM_012031:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.915 A=NA C2=0.350
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138771=RPAP3_C=PU(86.5=67.5)
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:
GCAAAGGAAGGGAGAGGAGGA
R:
AGGGGTCTTTAGCCACAAGGT
Band lengths:
357-1314
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: