MmuINT0004965 @ mm10
Intron Retention
Gene
ENSMUSG00000070332 | Trim80
Description
tripartite motif-containing 80 [Source:MGI Symbol;Acc:MGI:3588186]
Coordinates
chr11:115446758-115448270:+
Coord C1 exon
chr11:115446758-115446820
Coord A exon
chr11:115446821-115447663
Coord C2 exon
chr11:115447664-115448270
Length
843 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
TGCCTCTTCTCCAACCCCAGATT
3' ss Score
7.97
Exon sequences
Seq C1 exon
GAATCAGGATGAGCTCCTATGAGGTGCTGCCCGGAACTGTGGAGAGAAAGACACTGCTCCAGA
Seq A exon
GTGAGTTCTCAAACCAGAGGCCAACCCTGGGGGAGGAGAGGAGGGAGGAAGCCTAGGTGTCTGGACTTCCTGCCTCCCCTGCATTCTGGCCTCCAGGGCACTACTTATTCACTTTCCTGGTCTCTCACTGCAGACTGGGGACCCCAGAGAGACTTAGCCTGGGTTCCAGAGGCTGTTAGGGAGAGGGGGAGCCCCCTGTCCCTTCCTACTTCAGAGACGGCTCTTCCATGGCTCTCAGGACCTTGGGTGCAGTAGCTTTTGCCCTTATCTGGATGACTGCCAACTTCCGCAGTTAGCCCTCTCCCTGGCCTTGGCTCTAGGACCAGTTCCCAAGGCTTCGGAGATACTGAGAGTCAGATGTGGAACATTTTTGACCTCTGGTTCACCTCAGCCAGGAACCCTTCACTCTCCCCAAGTCTCATTCAAACTTGTCCTGAATAAATAAGAAAGGTGATTGATTGTGTTAGGATCTGGGGGGAAGGAGGAAGGGGTCCCCTATTCCCCAGCCCTTCCACAAAAGTCCAGGCTGTCTGGTGCAGCCCTGCCAGGGCTCCGCTATTTTAAGAAGTAGGTAGAGCCAGGTGTGGTAATCTAGCAATTGAGAGGCTGAGACTGGATGGTTGCCACAAGTTCAAGGTCAGCCTAGGTTAACCTGGGCTCAACAAAAATAAAGTCAATGAAAATAAACCAGTAGGTACAGAGGATACATATGGCTTCTAAGAACCTGGGGTAGAAGCATCCAGTGAGATCTTTGCAAACATCGTTGCAAAAACCTGCTCTTAGCCAGCGCCCTGCTCTAGGAACAATGACCCTGGCTCCCTTGTGCCTCTTCTCCAACCCCAG
Seq C2 exon
ATTACTGCAACCTGAACTTTGACCCCTGCACGGCCAGCGAAGAGCTGTTCTTGTTCAAGGAAACACACTCGGTGTTGAACTTGGGCATCCTTCTGGAGCCCTCGACCACCAACAGCCCGTTACCGGGCTTCAAGCAGTGGCCCCAGGTTCTGTGCTGCCCAGGCCTGTCCGAAGGCTGTCACTACTGGGAGGCTGAGGTGTCCAACTCGTGGATGTGCCTGGGAGTCACCTACCGTCGCAGCCCTCCGCTGAGCGGTCGCCCCCGTCGCAACATCGTCTACCTGCTGGGCCGCAACCCCTACTCATGGTGTCTGGAGTGGGATTCGCTCAAGTTCTCTGTGTGGCACAACAACACACAGACGGTGCTACACGGATCCTACCACCACACGCTCGGCGTGGCGCTGGACTTCAGGACTGGCTGCCTGTCCTTCTACAGCGTGGCGGGCGACGTGAACCTCCTCTACCGCTTCCTCACCTCCTTCCTCGAACCCCTGTACCCCGCGGTCATGGTCAGCAGTGGAGCCTCGCTCACACTCAAGCAGTATCCTGAGGCATAGGTAGCGCCCGCCGGCCCAGGCTTGCTGCCAATAAAGTTAGACTCTATGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070332:ENSMUST00000093914:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062223=SPRY=WD(100=68.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGGAACTGTGGAGAGAAAG
R:
CCAGACACCATGAGTAGGGGT
Band lengths:
349-1192
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