MmuINT0168164 @ mm9
Intron Retention
Gene
ENSMUSG00000025474 | Tubgcp2
Description
tubulin, gamma complex associated protein 2 [Source:MGI Symbol;Acc:MGI:1921487]
Coordinates
chr7:147184668-147185246:-
Coord C1 exon
chr7:147185126-147185246
Coord A exon
chr7:147184812-147185125
Coord C2 exon
chr7:147184668-147184811
Length
314 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TCCCCGGCCTTTGTTTGCAGGCC
3' ss Score
10.22
Exon sequences
Seq C1 exon
GTTTGCTGGTGCTTTCACTCTGCGGCAGCGAATGCTCAACTTTGTCCAGAATATTCAGTACTACATGATGTTTGAAGTGATGGAACCGACCTGGCACATCCTTGAGAAAAACCTGAAATCT
Seq A exon
GTGAGTTTCTGCTCTGTAAATTATAGCATCTGAGAGGCTCTGTCCCAGCCAGAATGCATTTCATAACAGCATCATGTGCTAGGGGGGTGTTATGGCAACCACAAAAATGTCCACCGCCTCCCATCTGCCTGCTTGCTGCTCATGTTCATGAGAGAGATGAGAGGAGACAGAGAAAGAAGGGAGAAAGACAAGTAGTCTTTAAGAGATCACAGGCCCATTGAGACAATGGCAACATACAGGCAATAGGGTACCAAGCCAGAACTGAAAACAACATGCCCAGGATCTTCGGTGACGTCCCCGGCCTTTGTTTGCAG
Seq C2 exon
GCCTCCAACATTGACGATGTCCTTGGCCACCACACAAGCTTCCTTGACAACTGCCTGAAGGACTGCATGCTGACCAACCCTGAGCTGCTGAAGGTTTTCTCCAAGCTCATGTCCGTATGCGTCATGTTTACCAACTGTATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025474-Tubgcp2:NM_133755:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF041308=Spc97_Spc98=FE(7.7=100)
A:
NA
C2:
PF041308=Spc97_Spc98=PD(4.2=45.8)
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:
GTTTGCTGGTGCTTTCACTCTG
R:
GCATACAGTTGGTAAACATGACGC
Band lengths:
263-577
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: