MmuINT0075009 @ mm10
Intron Retention
Gene
ENSMUSG00000026816 | Gtf3c5
Description
general transcription factor IIIC, polypeptide 5 [Source:MGI Symbol;Acc:MGI:1917489]
Coordinates
chr2:28568485-28569374:-
Coord C1 exon
chr2:28569292-28569374
Coord A exon
chr2:28568628-28569291
Coord C2 exon
chr2:28568485-28568627
Length
664 bp
Sequences
Splice sites
5' ss Seq
GGAGTATGT
5' ss Score
4.82
3' ss Seq
TCAGCTTCCTCTGCCCACAGGTT
3' ss Score
10.97
Exon sequences
Seq C1 exon
GATTCGGTCTACATCTTCCGGGAAGGGGCTCTGCCACCCTATCGACAGATGTTCTACCAGCTGTGTGATTTGAATGTGGAGGA
Seq A exon
GTATGTATGAGGGGTCCTGTGCCCAGGGATGGGTGACCCCTGGATTCTGGGCTAGCACTGGCTCAGGAGTAGTGTTCTCTGCAGCTCTTCCTGCAGCTGAGCTCTTAAGGAAGACTTGGCCACTGGGAGTTGGGTGTAGCCCTGAGTCTTGCTGTATGTGGGCTGTAAGGCTCATGGCAACAACCACAGGCTTGCACTGTGCCCTGTAGAAAGCAACCCTGCTTGCTAGTAGCAGTTACTCCCTGATCCTAATCCTGGACACCTTCAACCCATTTGTTCTCAACCATGGCTAAACACCACCAAGAGTGGGCAACAGCACTAATGGGAACAAGGCAGCATGTGGGACCTAGAGAAAGACTGACTGTAGCAGGAGAGTGCCTCTGGGGATACATCCAGCTTAGTGGGTTTTTTTTTTGGGGGGGGGGTGCTATTCAGAGACTGCAAAAGTTAGGGAACCTGCTGGGAGCTCTTCATTATCCACTACCTCTGAGACCTCTGTTTGAGCATTGTTTCCTAAACAGTCTCCCACTGGCATCCTGCCCATAGACATGTGTTAGAACTATCCCATGAGCCAGCACACATGAAGCCACACTCTGAGGCTCCAGATAAGCTCTCCCCAAACCCCATCCCTGGACACCACCCACTCAGCTTCCTCTGCCCACAG
Seq C2 exon
GTTGCAGAAAATTGTTCACCGAAACGATGGGACAGAGACTGTGTGCACAGAGAGAGATGGGTGGTGCCTCCCCAAGACCACAGATCACCTGAGAGACACCATGTCACTCATGATTCTACAGACCATCCGCTCTGAGAGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026816:ENSMUST00000113889:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.378
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGTCTACATCTTCCGGGAA
R:
AGGCCTCTCAGAGCGGATG
Band lengths:
222-886
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