MmuINT0167023 @ mm10
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119950820-119952284:+
Coord C1 exon
chr9:119950820-119951020
Coord A exon
chr9:119951021-119952154
Coord C2 exon
chr9:119952155-119952284
Length
1134 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGG
5' ss Score
6.25
3' ss Seq
ATCCCCTGGTGTTCCCACAGCCC
3' ss Score
9.36
Exon sequences
Seq C1 exon
TTGCTGGTTTTCCTGCAAGCCCTCGTAGCAGCTAAGAAGCAAAGGCTGGAGCAGGAGGCCACGGCGCTCCTGAAGGAGGCGGTGGAAGTGCACTTCTCCAGCATGCAGGGTCTGGCCCTGAGCCCCGAGTACTTTGAAAAGCTGGACCCCCTCTTTCTGGTCTGCATCGCCAAGGAGTATCTGCATTTCTGCCCCAAGCAG
Seq A exon
GTTAGGGGAACCAATCTCCATGGCAGGGGCTAAAGTACAGGTGTAGGTGGTGCTCACATGAAGATAGAGGTGAGGGCTTTCCCTGGCCAGGCACCAGCCAGCCTGAGCTGCAAGCAAGCAGGGGGCTAGTGTTTTCCTGGGGTTTGTTTGTTTGTTTGTTGACTTGTTTATAAGACAGGGTTTCAAAGCCTGGCATGGTGACACACACCTTTAATCCCAGCACTTGGGAAGCGGAGGCAGGCAGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCAAAAAAACAAACAAACAAAGAAAAAGACAGGGTTTCCTATAGCCAAGATTAGTCTCTAGTGTATTTACTCCATAGCCAGGGATGTCCTTGAACTCCCGATCCTCCTGCCTGCTCACCCTAGAGCTGGGATTACAGGTGTGTGCCACCACATCCAGCCTGTGGTATGGAACTCGGTGCTTTAACTAAAAGCAAGCACCCCACCCACTGAACAACAGTCACAGCCCCAGTGCTTCGCAAACTGGACCGAGTTGAAGCCAGATGACCTCAGAGGCTGTTCTAGTACAGAGCTGGATGTCCCGGGTGAGGTCAAAGCTTTGCATCGCTCCCAGGCTCCCAGGCCTTTCTGAAGGTGTGGAGCAGGGACGGTGTTTGGGTGGGTGGTCCACGGGCCATGCACCTGCCTGTATCCTGATAGGAACTATAATCTCAGCACGGAGGAGGAGGAAAGAACATCAGAAGCTTAAGAATGTTGGTGCTGGAGAGATGTCTCAGTGGTTGGAGAGCACTGGCTCTCAACCAGGGGTCAAGGGTTCAGTTCCCAGCACTTGTATGGCAGCTCACAACTGTCTATACCTGTATGGGATCCAACTTCCTCTTCTGGTGTTCAGATAGATAGATGTGCAGACAAAACACCCAGATACATGAGATATATAAATACATAAATCTTTTTTTAAAAAAATCTCAAGATTGTCCATGGCTGCACAGGGAATTTAAGGCAGTCATGGGCTACATGAGACCCTGTCCAGGGGAAAGGTTTTTAGAAAGAGGAGGAGGTAGGAGGCAGAATAAGGTGAACCACACATTTATCCCCTGGTGTTCCCACAG
Seq C2 exon
CCCCGGTCACCCGGCCAGCTCGTATCTCCACTTCTTAAACAAGTCGCCATGATCTTGAGTCCTGTGGTGAAGGTGGCCCCGGCCATGATGGAGCCACTGTATGTAACGGCTCAGGTCAAGTTCCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514:ENSMUST00000035100:11
Average complexity
IR
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:
PF128952=Apc3=PU(2.3=4.5)
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:
CTGGTTTTCCTGCAAGCCCTC
R:
GAGAGGAACTTGACCTGAGCC
Band lengths:
326-1460
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types