MmuINT0165047 @ mm10
Intron Retention
Gene
ENSMUSG00000000275 | Trim25
Description
tripartite motif-containing 25 [Source:MGI Symbol;Acc:MGI:102749]
Coordinates
chr11:89009119-89010973:+
Coord C1 exon
chr11:89009119-89009352
Coord A exon
chr11:89009353-89010804
Coord C2 exon
chr11:89010805-89010973
Length
1452 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CACACCTTGGCTTGTTCCAGAAA
3' ss Score
6.28
Exon sequences
Seq C1 exon
GATTCTATGAAGAGGAAGATGGAACAGCTGAGACAGGAGTATATGGAAATGAAGGCTGTCATCGACGCAGCAGAGACCAGCTCCTTGCGCAAGTTAAAGGAGGAGGAGAAGAGAGTCTACGGAAAATTCGACACCATCTACCAGGTTCTCGTCAAGAAGAAGAGTGAGATGCAGAAACTGAAGGCAGAGGTTGAGCTCATTATGGACAAAGGGGATGAGTTTGAGTTTCTGGAG
Seq A exon
GTGAGTTGTGGCTCCGGTGCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTTCTGCCCATGTTCTGCCTAACATTGCAGAGCTGATAGGAGTCTGGACCTCATAGAGTCAGGGCTTTAAGAGGTCAATTTGGAAAGCTCCCAGAGACATACTGTATGTCTACACTCTGCAATAGCTTACCTGAGTTCAGGGGCTTTAGAGAACCTCTGATGATGATCTGGTTCCCTCAGCTCAGCGTCTGGGCGTGGCTTCCGGGCTATTGCCCTAGTACCAGCAGTCTAGCTGCAGGCTGGGCTGTATTGATTTTGGAGCGCAGGGTTGTTTTGTTTCCAAGAGCACCTGGCTACTTAGTTCCTCGGGGCTATAATTAAGTGTACATTTTCTTGCCGGCTGTCAGCTGAGGCCTTCTTTCAGCTTGCCAACCAGTGTTTGCCTTAAGCCAGCAGAAACATTCCTCTTGAAGGCCTCTTACCCCGTTGAGTCTGGTCTACCCAGGATAATCGCCCTTTCTATTAATTCGACTGGTTGAAGATCTTCATTGTTCCTGTGGTGGTGTTCCCTCTCTGTTCCTAGTAGTTTGTCATGCAGTAATGCCCTTTCCATCTGCCCTGTACTTGGGGGGATGGTTATGGGGGACTCTTGGGAGCATCTTACTGTGTCACTCCCTTTGGTGTTGCAGATTATGCCTCCCCCCAACTACCGCCACCACCGTAGCACTGATGACGTCATTTCAGATGTGCTTGTTGGCTATAAGCCATATCTTGTCACTTATCTCTTCTCCCTCACCTGTCTAGTTCACGGCCCAGATCTCCGTGAACTACCTCGTTTGGTCCCCCAAGGACCCAGATTCCCTGCTCAGTACGGGAATGGTGGAACTTACCCTGTTCGTGATGCTTACTGGTACTTAGGTGGCGGTTTTGTTTTGTTTTGTTTTTTTTAAGATTTATTTATTATATAAGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGAATCAGATCTCATTGCGGATGGTTGTAAGCCACGATATGTGGTTACTGGGAATTGAACTCGGGGCCTTCAGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCAGGTGGAGGCTTTTTGCTACTCCAGGGAGCTCAGTCCTATGCCTAGAAACTACTGTGTTCCGTGAGAAAGGATTCAAAGCCCTTGTCTGAGCCCCCTTCTTAAAGTTCTTAAAAGAGCACTCCAGCTCGGTTCAGGATCAGAAACCTTGGCCGTGTGATTGAGGCAGGAAGTTGGATTTACTGTTGCCATAGGAACCATCAGTGTGTGTGGGGGGGGGGGTCTATGAGGATGCATCCCAAACCCTGGCTTTCCTCCAATCACCTGTGCTTCACACCTTGGCTTGTTCCAG
Seq C2 exon
AAAGCTGCAAAATTGCAAGGAGAGTCAACAAAACCAGTCTACATCCCTAAGATAGATCTGGATCATGATTTGATAATGGGAATCTACCAAGGGGCGGCGGACCTCAAGAGTGAACTGAAGCACTCCATTAAGAAGCTACAGAAGAAGTCTGAGGAGCACAATGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000275:ENSMUST00000107896:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.316
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGAAGGCTGTCATCGACGC
R:
GAGCCATTGTGCTCCTCAGAC
Band lengths:
354-1806
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