MmuINT0150799 @ mm10
Intron Retention
Gene
ENSMUSG00000037617 | Spag1
Description
sperm associated antigen 1 [Source:MGI Symbol;Acc:MGI:1349387]
Coordinates
chr15:36191126-36192109:+
Coord C1 exon
chr15:36191126-36191235
Coord A exon
chr15:36191236-36192003
Coord C2 exon
chr15:36192004-36192109
Length
768 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCATGTGAGTTTATCTCTAGGTC
3' ss Score
5.53
Exon sequences
Seq C1 exon
ATTTGATGTGGAAAAAGAATGTTCAAAGATTGATGAGGATTACAAAGAAAAGACTGTCATAAACAACAAGGCTCATCTGTCTAAAATTGAGACAAAAATAGAAACAGCAG
Seq A exon
GTAAGAAGAGAAGAAGGGGGCTGGTCGTTTTCCAACCTTTTAGTTATGGGAAACGTGTCCGCCAAGGAGATTTCCATGAACATTTATAGGCTTTTGGACTGAGTTGACTACTCCTAACAAGTTTATTTCTAGCTTTTATTGCTCAATTTTGTTTGAGACAGAATTTCATGTAGCCCAGGTTGGCCTTGAACTCACCATAGCTTGACCTTGGACTTCTGGTATTCTGCCTACATTAGCTAAGTGCTGGGGTTAGAGATGTATACTACTGTACCTGGCTTTAATAATGAAGTTTGTAAGACTTCAAAATATAAACCTATTTTTTCTTAGAATATTTTTTTGTTTTCCATTTCTTTTTCCAACCCTCTTTAAAAAAAAATCTCATTTTTTTTGCATCAGACAAAAGAAATGAGACGCTTTTTCATCTGAAGTCCAGCCTTTAAAGTAATAGCAAAACCAGCCATAAGAAAACCAATCCTAAAAAAATCAAATAAACCAAAAAAACAAAAACAAAAAACCCACATGGTTAGAAGAGAAGAAATAGCCCTAAACTCAAGAGAGCATTTATTTTGTTTATTTAATCTATGGCTTTCTGCTTCGCTAAAGCAACTCTTCTTGGGTGTGGCAGTGTAGCTCAGTGGTAGAATGTTTTTTAGGCCTGCTTGAGGCCCCAGGTTCTAGTTCAGGCCACCCTAAAAATAAAAGCACTCAAGCATTCAAGCCTTGCAAGAAATCATCTTAGGCTGTGTTTTCATGTGAGTTTATCTCTAG
Seq C2 exon
GTCTGACTGAGAAGGAAAAGAGTTTTCTTGCCAATCGTGAAAAGGGAAAAGGGAACGAGGCTTTCTACTCTGGGGACTATGAAGAGGCCGTGATGTATTACACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037617:ENSMUST00000047348:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.139
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134141=TPR_11=PU(39.4=72.2)
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:
TTGATGTGGAAAAAGAATGTTCAAAG
R:
CTGGTGTAATACATCACGGCCT
Band lengths:
214-982
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