MmuINT0167042 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119849534-119850417:+
Coord C1 exon
chr9:119849534-119849644
Coord A exon
chr9:119849645-119850250
Coord C2 exon
chr9:119850251-119850417
Length
606 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
CCTCCTCCTCCTCGATGTAGACA
3' ss Score
8.66
Exon sequences
Seq C1 exon
ACCACATCCACGATGCCATCAGCGAGCTGGAAGGCATCCAAAGCCACCCAGACACGTCCCTGTGCGCGGTCATCGCCCTGCTTTCTGCTCACAAATCCTGCGACACCATCG
Seq A exon
GTGAGCGTGGCCATGTTTGGTAGACTGGGCCCCAAGGGGAGGAAAAGCCACTGCAGGGACACAGGCTTGCAAGAGTCGTTGAAGAAGGCACCCACGCACAGGCGACTTAGATCTACTGTTAGCCAGCCAAAACAGGCTATCCCTCACCCTCACCCCACAGGCCTCTGAGAGGGCCTAATGTCTGAAGCCAACAGAGAGGGAGCAGGCAGAAAGCATGACAAAAGGGACCATCTCCCCAGACCAGGAATCTTGAAAACATCTTCATTCCTCACCAAGATAGTTTTAAAAATAAATAAACCCAGCCATTCTAATTGTGCCCCCAGTCTGAGGTCTCTAGGGAGTCAGAGAGAGGTGCTAGTGGAGACTTCCATCTCTCACTCAGGATGGACTGTGAGCCTCAGTCAGGAACTCAGGGTTAGTCCGTCTGCTTGACACCCTGGTGGACATGGGGTGGGGTGGGGCCTCCCGGACAGTAAACTGCGCTCAAGTATACACAACTCCAAGGATGTGGGCAGCGTCGCTGGTGCAGAGAGGGTACAATGCATCAGAAGAGGACATCCGCTCCTCACTCCTCACTCCTCCTCCTCCTCCTCCTCCTCGATGTAG
Seq C2 exon
ACATAGAAGCAGTTCAGGAACTGGAGAGCAGCTTGAAGGAAATTCGCAGGTCAGCCAGCAGCACTGCTCTGTACTACGCCAGCCTCTTCCTCTGGTTCATGGGTCACCACGACAAGGCCAGGGAGTATGTTGACCACATGTTGAAGGTCTCCAGCGGCTCCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:3
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:
NO
A:
NA
C2:
NO
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:
ACCACATCCACGATGCCATCA
R:
CTCTTTGGAGCCGCTGGAGA
Band lengths:
278-884
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: