MmuINT0150794 @ mm9
Intron Retention
Gene
ENSMUSG00000037617 | Spag1
Description
sperm associated antigen 1 [Source:MGI Symbol;Acc:MGI:1349387]
Coordinates
chr15:36164056-36164932:+
Coord C1 exon
chr15:36164056-36164424
Coord A exon
chr15:36164425-36164521
Coord C2 exon
chr15:36164522-36164932
Length
97 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
GCACCCTCCCCCTTTTCCAGACG
3' ss Score
9.18
Exon sequences
Seq C1 exon
GTGGATGGCAGCAGTGATGAGGAGCCTGAGAGACCTGCAGAGGCCTCTGCTACCTCCGCACCTGCCAGAGATGGTGTGGAAGATGGAGGGTCTGCAGAACCAGCAGAAAAACTCGACGTCTCCAAGCCTACTAATGCCTATGAGTTTGGACAGGTCCTAAGCACTATCAGTGCCAGGAAAGATGAAGAGGCCTGTGCACATCTTTTAGCCATCACTGCACCCAAAGACCTGCCACTGTTGCTAAGTAACAAACTTGAGGGGGACACGTTCCTCCTCCTCATTCAGTCACTTAAAAGTCACCTTGTGGCTAAAGACCCCTCCCTGGTGTATGAGCATCTCCTGTATCTGAGCAAAGCAGAGAGGTTTAAG
Seq A exon
GTAAGCAGCAGTGCACGCCTGGGAGGAGCCTGCCGTTTCTGGGGTCTGTAACTTCCAAAGCGTTGCTTATGCTCACAGCACCCTCCCCCTTTTCCAG
Seq C2 exon
ACGATGCTGACACTAATTAACAAAGGCCAAAAGGAGCAGATGGCGCAGCTGTTTGATGGTCTGTCAGACACACAGTCCGACGGTTTGACGGCAGAGGATGTACAGGCCCTAAGAAGGCAGTATGAGCTTTAACTTGGGGTTGCTGAGTTCAAGACAGCAAACATTGTGATGCAGTTGCATGGGTAAAGCCACACCCAGAAGGATCCCTGTTTGGACATCAGATGTTGTACTTATTTTTATATCTAGAACATGTATATTCTATAATCTGATTTTTATTTATTGTAAATATTCTCTTCTGTACTAGAGCCAACACCTTTATATTTAATAACTATATTCAGAACTTGGCAAATTATACTCTAGCTTATAATACATTTTCTTTTAATGACCTACCCATTAAAAATTTAAAATACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037617-Spag1:NM_012031:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.350 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138771=RPAP3_C=PU(86.5=67.5)
A:
NA
C2:
PF138771=RPAP3_C=PD(11.5=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:
ACCTTGTGGCTAAAGACCCCT
R:
TAGGGCCTGTACATCCTCTGC
Band lengths:
182-279
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: