MmuINT0005074 @ mm10
Intron Retention
Gene
ENSMUSG00000036770 | Stpg3
Description
sperm tail PG rich repeat containing 3 [Source:MGI Symbol;Acc:MGI:1921722]
Coordinates
chr2:25212762-25213583:-
Coord C1 exon
chr2:25213289-25213583
Coord A exon
chr2:25213173-25213288
Coord C2 exon
chr2:25212762-25213172
Length
116 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGG
5' ss Score
4.84
3' ss Seq
TCAGCTCATTCTCTCTGCAGCCG
3' ss Score
9.05
Exon sequences
Seq C1 exon
TGGCCATCACCCGCCGAGTACACGCCGCTGAGCCAGCCTGCCTTCCCGGCCTTCAGCTTTGGAGACCGCCATCGCTCTGTTGTCAAAATGCCGGAGAGTCGCTTCCGCCCAGGGATGCTCCGAGCCCGAGGTCCTTGTAGCTATACCCCACTCTTGCCTACCTCAAAGCCCTCTGGCGAGAAGCGACCCAGCCCCAACACCTATAACATCCTTCCTGGGTACCGTCTGCAGAGCACACGCTCACCTGCCTTCTCCATGAGCCGGTCTCCTGCGTTTGCATCCTGGGTCAGCTCCT
Seq A exon
GTAAGGAAGACATAGAAAAAGAGTCTTGGCCTGCTTGGGGTTGGAGTGGGGCTTGGGCCGCAAGGGAGGGGAGGGATGCTGGGGTGACGACTAGGGTCAGCTCATTCTCTCTGCAG
Seq C2 exon
CCGGAACCCCAGGTCCAGCTGCCTACTACGTGGAAGACTGCTACAACTCACGCTTCCCATCTTCGCCTGGAGTAGTTATTCAAGGAGTGCGCAGACCCAAGCGCCACGACACAGGCCCTTTCTGCACACTATAGGCCCATCGGGTATAGGTTGCAAAGCTGACCTCTCTTGAGGCTTACCAAGGCTTCCTTTGGAACTCTTTGTCTATAGCCGGCTTTCTGATCCTCTAGACACCCCTCACCCACTCTTCTGGCTTAGGCTGTCCAACAAGAAGAGTCTTCCCAGAGTCCCCTTTCACCCCACTATACCAAGATGCAAATGATTCTTCTGAACTGTGGTCTCTGGTGTGCCTGGTTGCCCATCCTTTGCCCAATGGGCTGTCTTGAATATGTGGCTTTCTGCTTCCCTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036770:ENSMUST00000114363:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.394 A=NA C2=0.341
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCGAGGTCCTTGTAGCTAT
R:
CTACTCCAGGCGAAGATGGGA
Band lengths:
247-363
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