MmuINT0167035 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119873350-119874965:+
Coord C1 exon
chr9:119873350-119873431
Coord A exon
chr9:119873432-119874814
Coord C2 exon
chr9:119874815-119874965
Length
1383 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TTTCTGTTCTCCTATTTTAGACA
3' ss Score
10.57
Exon sequences
Seq C1 exon
ATGCTGGCCGACCTGATGTTTAGAAGACAAAACTATGAAACTGCCATCAATCTCTACCACCAAGTGCTGGAGAAAGCTCCAG
Seq A exon
GTAACTAGGACCAGCAGACTGCTTCCCCACCCAACCAGCACCGCTATCCCAGAGAAGGGTGGGCCTTCTCCTCTCCTTCCTGGCTGGTCAGAGGAAGCCCCTTTCTTTCCAATTGTTCCCAGAGAGGCAGGAAACTGATAAAAACCCAGAACGTGGCAGCCCTTCCTGAGTCCAAGGGGCCAGTTCCTGGACCCAGGCACTTGGCACTGGAGTCAGGACAGCCTGTCTGTCCCCATATCTCTGCAGCCACTGGGACTGAACAGTCTCCCCCCTATGGCCACACCCACTTGAAAAACAGTTAGATGTTCTCCCTTGATTGTTGCTGTGCCCCTACTTGCTACTGAATGAAACAACTGCTTCAAGGGTCAAACCTGAAGCCCAAGCTACAGAGCCAGACAGTTCACCGTTGTCACCACGGGCACAGCAATCATGGTTAGGGCACCTGGGTCTGAATCCTGATATCATTTGTCTGTGTGACCTTTGAAAAACTACTTCACTCCTCCATTCTCTTTGTCCTCATCTGTCAAATGGGCACAGAAAGAATATTTACCTATAGCTAAGTCACAGGCAGAACACAGAGCCAGGTACAGTGTAAGTACCTAAGATAAGTAAGTGTAACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGACAGAGAGAGGGGGAGAGAGAGAGAGAGAGAGCCTAGAGGTCAGGGGGTGACACTGGGTGATCCTGCTCTACCTCCTTCATCCTTGTTCTCTTGGAACAAGATCTCTAGCCAAGGGGCTGGAGAGAGATGGCTCAGCGGTTAAGAGCACTGACTGCTCTTCCAGAGGCCCTGAGTTCAATTCCCAGCAAACACATGGTGGCTCACAACCATCAGTAATGGGAAACTGATGCCCTCTTCTGGTGTGTCTGAAGACAGTGACAATGTACTCCCATACATGAAATAAATAAATCTTCAAAAAAAAAGAAAAAAAGATCTCTAGTGGAACTTGGAACTTGAACTTGGCCCAGAGCCAGCAAGCCTGAGAAACTACTCCATCTGTGCCCTCCAAAGCCTGAGGTTCAGGAGACACGTGGCCACACTCATAGTCCACCCCTTGCTTTTTAGATGGGCACTGGGAATTTGAACTCAAGTCCACATGTTTGTCTGGCAAGTACTTTGCTGACGGAAGCATCTCCCCAGACCCTGCTGTAGCTATTTCAAGCACTATATAATTTACTCACGCTTGCATACAGACTCATCTGTGCTCAGCCTAAACAAGTAGTGTCTCCTAGGGCCTCCTCAAAATCCAGCACTCCTTCCCCGCTCAGGCCGCATCACACCAGCCCGATGCAGTTATCGGCCACCACACCCAGCATGATTTCTGTTCTCCTATTTTAG
Seq C2 exon
ACAATTTTTTGGTATTGAATAAACTGGTCGATCTGCTACGACGGAGCGGCAAGCTTGAAGAGGCCCCTGCTTTCTTTGAACTGGCCAAGAAGGTGTCTAGCCGGGTGCCTTTGGAGCCAGGGTTTAACTACTGCCAAGGCATTTACTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:22
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:
PF145591=TPR_19=PD(5.9=14.3),PF145591=TPR_19=PU(39.3=78.6)
A:
NA
C2:
PF145591=TPR_19=PD(58.9=64.7)
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:
GCTGGCCGACCTGATGTTTAG
R:
CAGAAGTAAATGCCTTGGCAGT
Band lengths:
231-1614
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: