MmuINT0165047 @ mm9
Intron Retention
Gene
ENSMUSG00000000275 | Trim25
Description
tripartite motif-containing 25 [Source:MGI Symbol;Acc:MGI:102749]
Coordinates
chr11:88870433-88872287:+
Coord C1 exon
chr11:88870433-88870666
Coord A exon
chr11:88870667-88872118
Coord C2 exon
chr11:88872119-88872287
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-Trim25:NM_009546:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.298
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: