MmuINT0167033 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119870873-119872409:+
Coord C1 exon
chr9:119870873-119871061
Coord A exon
chr9:119871062-119872298
Coord C2 exon
chr9:119872299-119872409
Length
1237 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
TCTGGTCTTGTCTGTCGTAGGTG
3' ss Score
10.31
Exon sequences
Seq C1 exon
GCCTTGGACCTCCAGTCCCGGATACTGAAGCGGGTTCCTTTGGAGCAATCAGAAATGATCCCCTTCCAGAATCAGCTGGCAGCCTCCATCTGCATCCAGATTGGGGAACATCACCTGGCGGAGAAAGATTACGACAGCGCCCTGAAATCCTATAAGGACGCCCTCGCCTACTCGCCCACAGACAGTAAG
Seq A exon
GTGTGTGGCCCTCAGAGTGACACCCTGAGGGCTGGCGAATGTGGCTCGATTTGATAAAGACCTTGCCTAACATTCACAAAGCCCTGGGTTCAGACCCCAGTAGCTTACAAACCAAGTAAGATGGTACACATCTGTCACCTCAGCCTTTGGAAGTTGGAGGCAGGGTCAGGAGTTTGGGGGTGTCCTTGCTGAGTGAGGTTTTTCTTCTCTGAGAAGCTGCAGGTGTAAAGGGGGAGGGAGGCCTCCAGGGTTGGAAGCAGCTCCCATTGACTCTGGGTCCTCAGCTACCACAGTTCTTAGAGGAAGGCTAGGAGGACCATCCTTGGGCCACCTATAGAGGCAAGAATGGGGAAGATGCCTCTGAAAGCCAGGATCTCCTGGCCTTCGCAGGTTCCCGCCACTTGGGGTGAGGGGGGATGGTAAGAGCTGTGACTGCCAGGCTGCATGGGAATGGAGCCCAAGCTGAGTTTCCAAGCCAGCTGAGAGTTGTGGGAGGGGTGTGGCTCCAGATGAGGAACCAGTTCACGCTAAGTTCACACCGAAGAAAGAGCCCAGCAGTGGAAGAGTGATTGCTTAGTGTGCACAAAGTCCTGGGTTCAGTCCCCAACACCACATCAAACCTTCCTTCTCTGCACTTGGGAGGTGGAGGCAGGGGGTCATCCTTGACTACACAATGAGTTGGAGGCCAGCCTGAGATAAATGAAATCTCAAAAATATACCTACGTGTATTGTGTGAAGAAAAAAAAAAAGCTGGCAACTGTTCACCCTTTGACAGACCGCTCATAGCAGGGACTGTTCTAGGCCTTGGTATCATCAGTAGGGCTAGGGCTAGGGCAGGTCATGAGTCTTGCCTACAGATTGCCCTCAGGCAAGAGGAAAGTGAGACAGACGCGTGTGGGAGACTCTAACGCAAGCCTGCCATCTATCCTGGTGTCCGGGGCACAGAGGAATGCCTAGAGGAAGGCGCAGAGGCCCGAAGGATAAGATTAGTGGGTTGGCCAGGCCTCATCTCATTCCGCTACTAAAACCGACCGAATGGCAGGGAAATTTGGTGGGACGGGAGGGCAAGAGCCATCATCTGCCCGAGGCAAGGGGCCTGCCTGCTTTAGAAACCAGCTGATAGGCCAGGCGGGCTGGCCGGGAGGGAAGTCAGAGTCAAAAGTGGTTGCAGGATTTTCCCGAGCGAGCCTGCGGCGCTGGCTTGCTTGCTTGCTCTGTCTGGTCTTGTCTGTCGTAG
Seq C2 exon
GTGGTGCTGGAGCTGGCCCATCTCTACCTGCTTCTGGGTCAGCTGGACCTGTGTGAACAGCGCTGTGCCCCCCTCTTAGAGATGGAGCAGACCCACGAGAGAGCCGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:20
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:
PF134141=TPR_11=PD(7.0=7.9),PF145591=TPR_19=PU(36.8=39.7)
A:
NA
C2:
PF145591=TPR_19=FE(52.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCCAGTCCCGGATACTG
R:
CACAGCGGCTCTCTCGTG
Band lengths:
294-1531
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: