MmuINT0168175 @ mm10
Intron Retention
Gene
ENSMUSG00000025474 | Tubgcp2
Description
tubulin, gamma complex associated protein 2 [Source:MGI Symbol;Acc:MGI:1921487]
Coordinates
chr7:140005270-140006160:-
Coord C1 exon
chr7:140006015-140006160
Coord A exon
chr7:140005451-140006014
Coord C2 exon
chr7:140005270-140005450
Length
564 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACT
5' ss Score
6.6
3' ss Seq
CCCACCTTCCTTTTTTTCAGGAA
3' ss Score
11.98
Exon sequences
Seq C1 exon
TGAGTTCATGGTGGAGGAACACGAGCTGCGGAAGGAGAAGATCCAGGAGGACTACAACGACAAGTACTGGGACCAGCGCTACACTGTGCTGCCGCAGCAGATCCCATCCTTCCTGCAGAAGGTAGCAGGCAAGATCCTCAGCACAG
Seq A exon
GTGACTGCTGCCTGGACCTCTCCAAGGAGGCCATCACAGCCTTCCAGCCCCTCTGTCCCTGAAGATGACTTAGCGGGAGTGGCCTACTACCCTGAGCTGCTAGCCACTGGTTCCTAGTTCTCCATCACTTCATTCTGGCCCCTAATCAGGAAGCTGTCTGCCTCGGACATGGCTTTATATCTTGGGTTTCTACATCTAAAACTCCGTCATTTAGCAACAAAAGCCATGAGGAACCCACACCTTCTAGGCCAGCTGCATCTTTTAGTTCCATTGCATAGGTTAGGGGCTGATGTAGAGATTAGGCAAATCCTCGGGGCCTTGACATATTGCTCTGCTCTGAAACCTGAACAGAATCAGAAAGGGCTGGGGGATTATTTAGCAATCTAGATCTCAAGGCTTTGCAAAATCCTTCCTATAACAGACCTAAAGAACTATTGCACAGTCTTTTTTAGGAAGCAAATTATGCGTCATGTCTGGCCTACTACCTCATGTTTGGTTGGCATCATAAAGGTTCAGGCCTGAGACTCAGCATGTACATACTAAACCCACCTTCCTTTTTTTCAG
Seq C2 exon
GAAAATACCTAAATGTGGTCAGAGAGTGTGGTCATGATGTCACCTGTCCCGTAGCCAAAGAAATCATCTATACCCTTAAAGAGCGGGCATATGTGGAGCAGATAGAGAAAGCGTTCAATTATGCCAGCAAAGTGCTGCTGGACTTCCTCATGGAGGAGAAGGAGCTGGTGGCCCACCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025474:ENSMUST00000026547:9
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=0.000
Domain overlap (PFAM):
C1:
PF041308=Spc97_Spc98=FE(9.4=100)
A:
NA
C2:
PF041308=Spc97_Spc98=FE(11.6=100)
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:
TGAGTTCATGGTGGAGGAACAC
R:
GCCACCAGCTCCTTCTCCTC
Band lengths:
318-882
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