MmuINT0167024 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119861273-119863431:+
Coord C1 exon
chr9:119861273-119861402
Coord A exon
chr9:119861403-119863273
Coord C2 exon
chr9:119863274-119863431
Length
1871 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTGTGTTTCCTGTTCCTAGGAG
3' ss Score
10.27
Exon sequences
Seq C1 exon
CCCCGGTCACCCGGCCAGCTCGTATCTCCACTTCTTAAACAAGTCGCCATGATCTTGAGTCCTGTGGTGAAGGTGGCCCCGGCCATGATGGAGCCACTGTATGTAACGGCTCAGGTCAAGTTCCTCTCAG
Seq A exon
GTGAGCAGTGAGTCCCAGAAGACACTGAGCCCTAGGGTTATATCCTGGAGAATAACCTTGCCTGGGGTACTTTTCCTATATGTGACATACATACACACCTGCATACATGTGTACATACATACATATATATATATATACATACATACATATGCACATCACAGAACGCTGCTGTGCAGGAGGCCAAGGCAAAGACATGGGTAAGAAGAGTGACTTAGTGAGGCTGGTGTGTGGGGCTTTCAGAGGGTCACTGAGGCACCCCCTGGTCTGCTAGCTCCTCCCGCATCACAGCTCAGGCAACTGGGGAGAAAGGGAAAGCAGGCTCCACGGATGCCCCATTGTTCTCTCTGACACTCAGTCCTTCCCTGGTCTCCAGTGAGCTCTGTGTTGAGTGGTTTTGCTCATCTGAGGGCTCCTAAGTCTTCATACTCAAGGTCTCCGTGCCAAATTTACTCTAAGCTTCAAGGTCTCCTGGGTTCAAGGCCAGGGAAGGGCTGTCCCAGAGGCACTGGAAGCTACCAACAGGTTTGGGACCAAAGCTAAGTCTCCAAGTGCTTAGGTTGCCATGGTGACCTCTTCCTTTCTCCACAGCACACAAGAAAAGAAAAGATGAGGGAGTTTGAGACCCAAAAGAGGTGTAGGCCAACCTCCAGGTGAGGGACTCCAGGCAGCAGCTGTGGAGAGGCCTGGCTACAGAGGGAGAAAATGCACCTCCTGGCCCACAGCACCCAGGCGTTAAGCTGCCATTGTCAAACTGGGCTGCAGCTGGCTTCAAAGCGGCCCCAAGTCTCCCAGCGTCAGGAGTTCAGACCTCCGTGAAGAGAAGTCTTCTTTTTTTTATTTTTATTTTTTATTTTATTTTATTTATTTATTTATTTTTAGTTTTTTTTTTTGAGACTGGGTTTCCATGTGTAGCCCTGGAACTCACTCTATAGACCAGGCTGGCCTCCAACTCGGAAATCTGCCTGCCCCTGCTTACCAAGTGTTGAGATTAAAGGCGTGCGCCACCACTGCCCGGCAAGAGAAGTCTTCTTTTTAAATGAAGACTTTGTCCCTCCAGCTAAATGACCTGCATGACCACATCCCAAATCCCACATCCAAAAGATAGTATGTCAAGGCCTAGGCAGATACAGTGCCTGCTTAGCATGCTTGAGATCCTGGGTTCGATTCCCAGCACCACCAGAAAGAAAGATAAACTAGCAAGGATCAGGATACCAGCCTTACAGGGTCATGTGGATACTAAGTCAAGTCAGACTTTCTCTCCTCTTTTCTTTTTTTCATTTTTGTTGTTGTTTTCTTTTCTTTTCTTTTTTTGGTTTTTTTGGTTTTTTTGGTTTTTGTTTTTTCAAGACAGGGTTTCTCTGTGCAGCCCTGGCTGTCCTGGAACTCAGGATGCTGGGATGTGTCACCCACGTAAACGCGTGCGTCACCACGCCCCCGGCTAAGTTAGACTTTCCAACAGGCCTTGCAGGGCAGAGGAAAGAGCTCGGTCATCGGGTGCTTTCCTTGCAAGCAGAGGACCTGAGTCCGACCCCATACTTGTAGAACTAGTGCAGGAGAGGTAGAGATACAGTGGGATCCAAGGGCTTGCTGGTTGCCTAGCCTAGCCTACTCGGTGAGCTCCAGGTCAGAGAAAGACCCTGTCTCAACACAAGGTGAATGTCTCCTGAGGAGTCTCACTCACACACACACACACACACACACACACACACACACACACACTCAAAATTTTAAAGCTGGGTGAGACACCAATGTTGAGACTTCCGAAAGGCTGCACCTGTGCAATCCAGTCTCCCTCCCTCTACTTGTTGGGCGGGTCCTTGGGGTGGCTCCTGAAGATCCCTGGACACAGACTTTGTGTTTCCTGTTCCTAG
Seq C2 exon
GAGAGCTGGAAAATGCGCAGAGCACCCTGCAGCGCTGCCTGGAGCTGGACCCCACATTTGTGGATGCTCACCTCCTCATGTCCCAGATCTACCTGGCCCAGGGCAACTTCGCCATGTGCTCCCATTGCCTAGAGCTGGGTGTCAGCCACAACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:12
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:
PF128952=Apc3=PU(2.3=4.5)
A:
NA
C2:
PF128952=Apc3=FE(60.5=100)
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:
CCGGCCAGCTCGTATCTCC
R:
CTGGAAGTTGTGGCTGACA
Band lengths:
278-2149
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: