MmuINT0167038 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119875385-119875897:+
Coord C1 exon
chr9:119875385-119875577
Coord A exon
chr9:119875578-119875672
Coord C2 exon
chr9:119875673-119875897
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGA
5' ss Score
5.51
3' ss Seq
CTTCTCGTGGATGTGGGCAGAAG
3' ss Score
2.07
Exon sequences
Seq C1 exon
CTCTGCCAGTAGAAAGGAGTCTCAGCAGCACGGGGTGCGCACTGCAGAGAAGCTACTTCGGGAATTTTACCCACACTCGGAATCCGGGCAGACCCAGCTGCGGCTGCTGCAGAATCTCTGCCTGCTGGCCACCAGGGAGAAGGCGAATGTAGAGGTGGCTCTGGGAGCCTTTATCGAGATGGCCCAGGCTGAG
Seq A exon
GTGCGAGGGCTAGGGATGGGTTCCAGTGGGCAGGGGTCAAGATGGGGGGTGACTGCCAAAGTGCCCCAATGTTTGCTTCTCGTGGATGTGGGCAG
Seq C2 exon
AAGGACAGCATCCCTGCACTGCTGGCCATGGCGCAGGCCTACATACTCCTGAAGCAAGTCCCCAAGGCCCGAACGCAGCTGAAGCGCCTGGCCAAAGTCCCATGGACGGTCGACGAGGCCGAAGACCTGGAAAAGAGCTGGCTTCTGTTGGCAGATATCTATTGCCAAGGCGGCAAGTTCGACCTGGCCTTGGAGCTACTGCGCCGATGCCTGCAGTATAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF145591=TPR_19=PU(35.8=29.2)
A:
NA
C2:
PF145591=TPR_19=PD(60.4=42.7),PF134141=TPR_11=PU(48.5=44.0)
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:
ATGTAGAGGTGGCTCTGGGAG
R:
CTTTTCCAGGTCTTCGGCCTC
Band lengths:
182-277
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: