MmuINT0164883 @ mm10
Intron Retention
Gene
ENSMUSG00000064043 | Trerf1
Description
transcriptional regulating factor 1 [Source:MGI Symbol;Acc:MGI:2442086]
Coordinates
chr17:47323278-47324654:+
Coord C1 exon
chr17:47323278-47323662
Coord A exon
chr17:47323663-47324587
Coord C2 exon
chr17:47324588-47324654
Length
925 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CTCTAGCATTTGTGTTTCAGGCA
3' ss Score
6.08
Exon sequences
Seq C1 exon
GAAATCCCCCGGAAACATCCACCTATCGCCGCCAAAGTTGAGGAGCCCCTCAAGAACCTACCAGAGAAGAAGAAATTCCGGCACCGGCCTGAGCCCCTCTTCATCCCACCACCGCCTTCGTCCTATACTCCCAACCCCACCTCTTACTCGGGGGCCACCCTGTACCAGAGCCAGCTGCGCTCCCCGCGAATCCTCGGGGACCACCTGCTCCTGGACCCCGCCCACGAACTGCCCCCCTACACGCCGCCACCCATGCTGAGCCCTGTGCGCCAGGGCTCAGGGCTCTTCAGCAATGTCCTCATCTCTGGCCACGGCCCTGGAGTGCACCCCCAGCTGCCCCTCACTCCCCTCACGCCCACGCCACGTGTGCTGCTGTGCCGTTCCA
Seq A exon
GTGAGTCGTCCCTTAACCCCTGGTGTCAACCTCTGTCGATTTGAATACTACCCTGAGTGGGTGGGGAGTCACACTTTCTTCACCTGGCTAGTTTACCCCGCGGATTTCTGTGAAATACCCATTATGTGTACCACATTCGATGCGAGGTGGTCTTAAAGACTCCGCATCATCGCATTTAGTAACTCGAGGGAAGCAGTGTGAGGAGAGAAGCGAGTCAGAGAGAGTGTCTTTGGGATAAAGAAAACGGGAAATGTGCACTCTAAGACTGCTTTGGATGGTCAAAAAAGATGCTTAAGATAAATATTTAGCCGTTATACACATGGCAGCTATTACTAGCAAGAGTAAATCTTAATATTTACTGTGCTTTAAAAAAAATCCATCATGAACCCTGTAGGCCATATGTGAGTGTAGCCCCAACTACTATAGAAACTGAGGCAGAAGGGATTGGGGGGGGGGTTGAGGGCCAGCCTGAGCAGCACAGGAAAACCCCATCTCCTCCGTAGATATTGAGGGGGCCAAAGGGAGATGAGAGATCTTTGTAGCTAGGTTTCTTTCTGGTTGCCTAGAAACCATGTAGCTTAGCCAGCCAGCTTTAACTCACAGTGTGAGAAATGGCTATCCTAAGGCCTGTAATCCTAAGCACTGTGGAGGCTGAGGCTTAAGGCTGGAGGATAGGAAGTTCAAAACCAGATTGAGCTACACATCAAGACCCTGTCAAGGGGCTGAAGGATAGGGAGAGAGAGAGAGACAGAAAGAAAAAGAACCTCATGAATCCATCATATCTTCTGGAAATTGATATGAATTGGGTAGGAGGAGAGCTTTGTTATTTTTGGCTAATCACTGATCAGCTAACTTCAATCTGTATTCATTTCTTGGGATTTTTTTTTTTCTTGTTGTCTGGTAAACTCTAGCATTTGTGTTTCAG
Seq C2 exon
GCAGCATCGATGGCAGCAATGTGACAGTCACCCCAGGACCTGGAGAGCAGACTGTGGATGTTGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064043:ENSMUST00000190080:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
CTGAGCCCCTCTTCATCCCA
R:
ACATCCACAGTCTGCTCTCCA
Band lengths:
358-1283
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