MmuINT0075008 @ mm9
Intron Retention
Gene
ENSMUSG00000026816 | Gtf3c5
Description
general transcription factor IIIC, polypeptide 5 [Source:MGI Symbol;Acc:MGI:1917489]
Coordinates
chr2:28424812-28426036:-
Coord C1 exon
chr2:28425939-28426036
Coord A exon
chr2:28424895-28425938
Coord C2 exon
chr2:28424812-28424894
Length
1044 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTCTTCCCTCTTTTTCTCAGGAT
3' ss Score
10.32
Exon sequences
Seq C1 exon
CCAACCAGCCTGGCACCATGCATGACCTGAAGCAGGGCCTGGGCCCATCAGGAACTGATGGCCCACGGAAATTGACCTACAATAAATACAAACTCAAG
Seq A exon
GTGAGGTCAGGTGGGGGCGATGGAGTGTCACTGCAGGGCTGGGCACTTCTGAGTGACCCTGGGAAGTGTTATTAACTGACTTAGCTTTCTCCCCACCAAGTGCCTTTGTATTATTCACCCCTCAGGGCCCTCCAGAAACAAAGGCCATCTACCCACGGTCATGGGGAACTAGGGCCATCTGGGCAGAGGTGGTGGTGACAAGTCCTGGAGAGGGAAATTTGACTACAGCAGATGTGTGCAGCTGCCCCTGAGGAGCCTGGCTCCCTGAGGCCTATAACTGCTGCTGGGATGGGCGGGGGGGGGGGGGGGGTGGGTGGTGGTGGCAGACATAGACATGAGCACAAGCCAAGCCAGAACATCTGGGGACCAGCTGTGGGGTGAAATGCAAGATGGGATGCACACAGCCTTCCAGGGCTCACGTTTTCATCAGCACCACCCATCAGGGGCTAGCACATGCCAGTGCTTCTCATGGCCCCTCCATGGTCCTGGGAGAGGCCAAGTTGGTGTCTCTATCCTGCAGTTCCTGCTCAAGTAGCTGTGTCAGAAAATTTAAGTTGATCAGAGACAAGGTGACATGTAGGGAGACAGCTTTCTCCTAGGGCCATTGTGCCTTGGCTACTAGTGTCTTGGGGCCTTGTCTTTGACTCTAGGGCTATATTCTAAGTAAAAAAAGGAGGAAATGATATATTAAACCCTGCCTTCCCCCCAAAAAGCAGCCAACGGAGCATGCAGGGTCCATAGAGTGACTGAGTAGAAACAGATGTTGAGGTGCCCGTCATCCAATTCCTTTTGGAAGGTGCAGCAGACAGAGCCCAGCATGGGTTAAAGGTAGTCCATACTGTAGACTAAGGAAGGCCTGACTGCCTCAACCCCCCAGCACCTCCTGTGGAGTGAGAGCCTCCTCTCTCCACATCTGCTGGCCACCCTGGGCCTGGGGACAAGCCAACCCCTTAGACTTCCATGAAAGCCACAACATGGGTATCCCCAGCACTGTTAGACCTCGGGTACTCTGCAGCCATCCCATCTCTTCCCTCTTTTTCTCAG
Seq C2 exon
GATTCGGTCTACATCTTCCGGGAAGGGGCTCTGCCACCCTATCGACAGATGTTCTACCAGCTGTGTGATTTGAATGTGGAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026816-Gtf3c5:NM_148928:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.545 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: