MmuINT0167025 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119863274-119863867:+
Coord C1 exon
chr9:119863274-119863431
Coord A exon
chr9:119863432-119863651
Coord C2 exon
chr9:119863652-119863867
Length
220 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
CTCTGCCCTGCCTCTCCTAGGTC
3' ss Score
10.99
Exon sequences
Seq C1 exon
GAGAGCTGGAAAATGCGCAGAGCACCCTGCAGCGCTGCCTGGAGCTGGACCCCACATTTGTGGATGCTCACCTCCTCATGTCCCAGATCTACCTGGCCCAGGGCAACTTCGCCATGTGCTCCCATTGCCTAGAGCTGGGTGTCAGCCACAACTTCCAG
Seq A exon
GTGGGAGCGCGCCACACTGTGTGGCCCACCCAACTGTTGCACCCTTTTCCGGACAGTTGCCTGGGAGGGGGGAAGCCACATAAAGGCATACGCGTTCCCCCCAGACCCTCTGCTAACCGGCAGGCAGGGCTGGCTCCCCAGCTCCCCTGGAGAAGTTCCTGGGGCTGCTGTATGACAGCAGGGGTGTAAGCTAGACCCCACTCTGCCCTGCCTCTCCTAG
Seq C2 exon
GTCCGAGACCATCCCCTCTACCACTTCATCAAAGCCAGGGCCCTCAATAAGACGGGCGACTATGCCGAGGCCATAAAGACCTTAAAAATGATCATAAAGGTTCCCACCTCGAAGGCAGAAGAGGGCAGGAAGTCCCAAAGCCCCTCCGTTCGGCCCAGCGAGCGGGCATCCATCCTGCTAGAGCTAGTAGAGGCTCTCCGACTGAATGGGGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:13
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=0.167
Domain overlap (PFAM):
C1:
PF128952=Apc3=FE(60.5=100)
A:
NA
C2:
PF128952=Apc3=PD(34.9=41.7)
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:
TGGATGCTCACCTCCTCATGT
R:
CCATTCAGTCGGAGAGCCTCT
Band lengths:
307-527
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: