MmuINT1020235 @ mm10
Intron Retention
Gene
ENSMUSG00000026816 | Gtf3c5
Description
general transcription factor IIIC, polypeptide 5 [Source:MGI Symbol;Acc:MGI:1917489]
Coordinates
chr2:28567608-28568627:-
Coord C1 exon
chr2:28568485-28568627
Coord A exon
chr2:28567803-28568484
Coord C2 exon
chr2:28567608-28567802
Length
682 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CTTCTTTCCTTCGTGTACAGCTC
3' ss Score
10
Exon sequences
Seq C1 exon
GTTGCAGAAAATTGTTCACCGAAACGATGGGACAGAGACTGTGTGCACAGAGAGAGATGGGTGGTGCCTCCCCAAGACCACAGATCACCTGAGAGACACCATGTCACTCATGATTCTACAGACCATCCGCTCTGAGAGGCCTG
Seq A exon
GTGAGAGCCACTTGTGCAGGGAAGCCTCAGACCTATTCGAAACCGGTCTGACAAAAGCTGGCAAAAAGCTCCAGAGAGCCTCAAACTATCCGTGGTGGGAGGGGGTCTGTGAGCCAGGACTCAGCCGTGACACTAAAGAGTGCAGACAAGAAGGAAGAAATGCTGCCTCCTAGTACAGGAAGGCCAGCTCTGCCCATCTCTCCCCTGGGGCTGTGTGGCTCCGTGGCTCCTTTCTCAGAGCCTGGGCTCGCTCCTGGGGACACAGGAAAGTGAGGTACTTGCTAGGCTGGGGTCTCCAAGGGGCCCTGAAGAGCAATGCAAAGCTCTTGTAAAGGACTCCTTCCGAGCTGGGTAGCAGGCATCTGAGTAGAGCAGGCTTCCTGGCTGTTTGAGGTGTAGGCTTCACCTCTTGGGACCCCAGTCAAGGCTTTGAAGCTTTTCTGGGAATTATGGTGTATGCCCCCTCAAGGTGCAATGGGCCCCAGGCTGCTCATGGTTCTCCCCAGAAAATGGGTTCAAACATGCCTACTAGGCTCCCTGCCTGTCCCCATCCCTGTCCCCACCCCCACCCTCATGCTCTCCTTCGTGGCAGATTCATTGCTAGAGCCTGTCACAGTGAAGGGACTCTAGGGCTGCCTAGGAAGCCTGTGTTGGAACACAGCCTTCTTTCCTTCGTGTACAG
Seq C2 exon
CTCTTTTCTCCAACACAGGTAAGGCTGATCGTGGGAAAGAGCAGCTGATGTTTGAATCTGGAGAGGAAGAGGAGGAGGAGGAGGAAGAGGAGGAAGAGGAGGAGGAGGATTTCAAGCCCTCAGATGGGAGCGAGAATGAGATGGAGACAGAGATTCTGGATTACGTGTGAGGAAGCGCTGTTCCCAGGCAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026816:ENSMUST00000113889:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.378 A=NA C2=0.959
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCAGAAAATTGTTCACCGA
R:
GGAACAGCGCTTCCTCACAC
Band lengths:
327-1009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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