MmuINT0150794 @ mm10
Intron Retention
Gene
ENSMUSG00000037617 | Spag1
Description
sperm associated antigen 1 [Source:MGI Symbol;Acc:MGI:1349387]
Coordinates
chr15:36234301-36235610:+
Coord C1 exon
chr15:36234301-36234669
Coord A exon
chr15:36234670-36234766
Coord C2 exon
chr15:36234767-36235610
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
ACGATGCTGACACTAATTAACAAAGGCCAAAAGGAGCAGATGGCGCAGCTGTTTGATGGTCTGTCAGACACACAGTCCGACGGTTTGACGGCAGAGGATGTACAGGCCCTAAGAAGGCAGTATGAGCTTTAACTTGGGGTTGCTGAGTTCAAGACAGCAAACATTGTGATGCAGTTGCATGGGTAAAGCCACACCCAGAAGGATCCCTGTTTGGACATCAGATGTTGTACTTATTTTTATATCTAGAACATGTATATTCTATAATCTGATTTTTATTTATTGTAAATATTCTCTTCTGTACTAGAGCCAACACCTTTATATTTAATAACTATATTCAGAACTTGGCAAATTATACTCTAGCTTATAATACATTTTCTTTTAATGACCTACCCATTAAAAATTTAAAATACATTCTTTGTGGTGGCAGTTCTTTCAGGTTTGACAGCAATCAGTGACTTTAGTCCTTTAAAAGCAAATGTTAGCAGTTGCGACTCCATCACTTTCTGTCCCACTCAAATGCACAAAATCCACTTTAGAGAAGTGGCTTACTGTCACTTGAGATGAAATTCAACACTTAATGTCTATGAGATCATTATTAGTTTATTAATTTAGAGCCCTAAAGGAGTTACTTTTTCTAATATTTAGTGTGACTTTGTCTTCTACATTGCTTGTAAGCAATAAAACTGTATGAAACAAATTCACCCTGCTTTTGTATTTGAATTGTCCCCCACCCCAACTTTTTGTTTTCTGCTTTATTTCTTTACTCTAACAAGTGGAAAAAGTCACTGGATACTCCTTTTTCTGTGTTAAAGGTATTTTCTACACAATAAACATTCAAGCCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037617:ENSMUST00000047348:18
Average complexity
IR
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
- 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