MmuINT0167029 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119867356-119867943:+
Coord C1 exon
chr9:119867356-119867466
Coord A exon
chr9:119867467-119867804
Coord C2 exon
chr9:119867805-119867943
Length
338 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ATGTCCTGTTTGCACAAAAGGCC
3' ss Score
3.82
Exon sequences
Seq C1 exon
CCTGAGAAGGCCCTGGAGGTGTATGACGAGGCCTATAGAAAGAACCCTCACGATGCCTCCTTGGTCAGCAGGATCGGACAGGCCTACGTGAAGACCCACCAGTACGCCAAG
Seq A exon
GTGAGGTTGCCCTGGGGAGGGCCAGCCATGCAGGGAAGGGAAGAAAGCCCATATGTCAGGGCTCTAGATGGGAAGGGTCAGAGTAGTGTTTCCACTCCGGCTACCTGTTGAGGATGGGACCAGTGGTGATCTCAGCCAGCCTACACTGCAGCCTGCTCCACTGAGGCCTGAGCCCAATGAGGGGAGAAGTGGGGAGCGGGGGGGGGGCACGGGGGCATTCATCTTGGACATCTGTGTGCTGAGGGACAGTCTAATGAAGTGGCTGCTCAAGGGACATGGCATTAGCCACCCCCATGCAGAAGCCAAACTGATGCCCATATGTCCTGTTTGCACAAAAG
Seq C2 exon
GCCATTAATTACTACGAGGCTGCCCAGAAGATCAGCGGGCAGGACTTCCTGTGCTGCGAGCTGGCCGAGCTCCTCCTCAAGCTGAAGAAATACCACAAGGCAGAGAAGGTGCTGAAGCAGGCCTTGGAGCGAGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:17
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:
PF134141=TPR_11=FE(55.4=100)
A:
NA
C2:
PF134141=TPR_11=PD(18.5=25.5),PF134141=TPR_11=PU(40.8=61.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAGGCCCTGGAGGTGTAT
R:
CTGAGTCTCGCTCCAAGGCC
Band lengths:
247-585
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: