MmuINT0005073 @ mm10
Intron Retention
Gene
ENSMUSG00000036770 | Stpg3
Description
sperm tail PG rich repeat containing 3 [Source:MGI Symbol;Acc:MGI:1921722]
Coordinates
chr2:25213289-25213919:-
Coord C1 exon
chr2:25213831-25213919
Coord A exon
chr2:25213584-25213830
Coord C2 exon
chr2:25213289-25213583
Length
247 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
AGCGTCCTGACTCTTCATAGTGG
3' ss Score
5.1
Exon sequences
Seq C1 exon
AGGGTGGTGGCCGCAGGGCATGGCAGACCATGTGGCTCCAAAGTGAAAGCCCCTTCATGCAGAAGACCGACTTCAACCGAGAGACAAAG
Seq A exon
GTAGGGACACTATGTGGGCCAGGTAGAGGAAGAGTAAGAGAAGGGGCCGCCTTGAGGAGGTAGGGGTGTTGAAGGTGAGGAGGAAGTGAGGAAAGGAGGGGTCAGATGCCTGTGGGAGGGGCTACATGCCTGGGTTTGGCGTAGAGGGAGAACCAGGAGCTAGGAAAGCACAAAAGCATGGATCAGGCCTAGGAGGATAGTAAGATGAAGCTGGGCAAGGAGGTTGCAGCGTCCTGACTCTTCATAG
Seq C2 exon
TGGCCATCACCCGCCGAGTACACGCCGCTGAGCCAGCCTGCCTTCCCGGCCTTCAGCTTTGGAGACCGCCATCGCTCTGTTGTCAAAATGCCGGAGAGTCGCTTCCGCCCAGGGATGCTCCGAGCCCGAGGTCCTTGTAGCTATACCCCACTCTTGCCTACCTCAAAGCCCTCTGGCGAGAAGCGACCCAGCCCCAACACCTATAACATCCTTCCTGGGTACCGTCTGCAGAGCACACGCTCACCTGCCTTCTCCATGAGCCGGTCTCCTGCGTTTGCATCCTGGGTCAGCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036770:ENSMUST00000114363:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.367 A=NA C2=0.394
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
Cow
(bosTau6)
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:
AGACCATGTGGCTCCAAAGTG
R:
AGACGGTACCCAGGAAGGATG
Band lengths:
292-539
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