MmuINT0167039 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119875673-119876434:+
Coord C1 exon
chr9:119875673-119875897
Coord A exon
chr9:119875898-119876313
Coord C2 exon
chr9:119876314-119876434
Length
416 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAAG
5' ss Score
1.31
3' ss Seq
CTAGCTGGCTTTCCCCGCAGTCT
3' ss Score
8.73
Exon sequences
Seq C1 exon
AAGGACAGCATCCCTGCACTGCTGGCCATGGCGCAGGCCTACATACTCCTGAAGCAAGTCCCCAAGGCCCGAACGCAGCTGAAGCGCCTGGCCAAAGTCCCATGGACGGTCGACGAGGCCGAAGACCTGGAAAAGAGCTGGCTTCTGTTGGCAGATATCTATTGCCAAGGCGGCAAGTTCGACCTGGCCTTGGAGCTACTGCGCCGATGCCTGCAGTATAACAAG
Seq A exon
GCAAAGCTAACTAGCCTGGGAGAATAAGGGAGGGGTGAGCAGGGTGGGGAGAGGTCGAACCAGAGGGCCCGGAACCAGGATCCACGGGCCAAGGGAGGGCCGAGCTTATGAGGGTCAGGCATAGCCAGGAAGAGAAGAGAACAGAATACCGGAGAGAGATAATAGAGGTTATGAGCCATATGCAAGGATTAGCTTCTGGGAGATGGAACTGTTGGCAGAGGGGCTTTATTTGAAGGGGTTATGCCAGCTTTTGAGTAAAGAGTGGGTGCACAGTTAACCCTTCAAAAAGCTGGAAGTGATTTTGGGGGTCCCTCATACACTTTGGGTTATTCCTGCTCAACACCATCCTGGTCCCCACCCTGAGGACCACGGTGGCTGCTACTTTGGGCAGAGGTGCTAGCTGGCTTTCCCCGCAG
Seq C2 exon
TCTTGCTGCCGGGCCTATGAGTACATGGGCTTCATCATGGAGAAAGAGCAGTCATACAAGGATGCAGCAACCAACTACGAGCTGGCCTGGAAGTACAGTCATCAGGCCAACCCCGCCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:26
Average complexity
IR-C
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:
PF145591=TPR_19=PD(60.4=42.7),PF134141=TPR_11=PU(48.5=44.0)
A:
NA
C2:
PF134141=TPR_11=PD(48.5=80.5)
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:
CATCCCTGCACTGCTGGC
R:
GGGTTGGCCTGATGACTGTAC
Band lengths:
330-746
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: