MmuINT0167047 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119854601-119855929:+
Coord C1 exon
chr9:119854601-119854699
Coord A exon
chr9:119854700-119855736
Coord C2 exon
chr9:119855737-119855929
Length
1037 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CATATGTCCACTCTTGGCAGTGT
3' ss Score
5.75
Exon sequences
Seq C1 exon
GCTGCCGACCGGGTCAGAAACCTCATCAAGGCGCTAGAGACTGGAGAGCCCCACAATCCAAACCTACATCTTAAGAAGATCCTTGTAATCAGCAGGCTG
Seq A exon
GTAAGTAGGTGGTGCCCCATTTCTGACCTACCCCCTGCCCTTTATGCTCCAAGCACCCAACCCCCTCTCCTTCTGCCTGGGCCTCTGCCCTTCTCTGGCTGCAAACAGTGACATGATGCGGCCACTAGGAGGCGCCACAGTGACCAGGAAGTTGGGGTCTGAAGGGCTTTTACAGTGGTGCCCCTACTAGGGAGAGAAGGTACCTGCATCTGCTTCGCAGAATCACACCAGCCGTGACCCACCTCCTCCTGGCAGTAACCTGACCGACAGCCCACCTGGGCCTGTGACGTCAAAGGTCCAAACAGACCAAGTTGCCATAGAGTTTGTCTTTTGTAAAGCCTTCACCTCCCAAGCAAGGTTTGCAGGAAGAAAACGAAGAATCAGGCCAACCCCTGGGCTGCAGGAACCAGACTGGGGCTCCTAGGTGCCACTGGGTGACTGTCGCCCTCCATGTGTGTGTCCGAGTGTCTGAATTTCTCAGCTCTGTCCTCAAGTGGCAACGGACATGGTTTGCCATGGCTACTTCTCATAAACAAGCTTTTCAACAAGCCTTAACTAGAAACAAACAAACAAAAGCAAACGCCTCCTGGTAGGAGGCTGAGAGTGGTGGTACGCACCTGTGATGTAGAAGCAAGAGGATAGAGAGTTCAAAGCCAGCCTCAGCTACATAGCAAGTTCAAAGCCAGCCTGGGCTACTGCGCTACAGAAGACCCTGTTACTAAAACAAAACAACCTGTAGGTAACTACCGAGATCATCAGTTACTGTGACCAGCCAAGGGCACATCCAGAAGAGCCTGTGGCCAGAGGATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGAAAAAAATCCCAGATGCCTCATGGGCTCTTTGGGACCTCCCCAGCTGTGAACCCCCCACCCCTCCACACACACATACACGCACACACATCTGATGTATCTTCACCCAGGCACATTGGGCTGACAAGACTCTTTGTTCCCATATGTCCACTCTTGGCAG
Seq C2 exon
TGTGGGAGGCACCAGGTGGTCCATCGGCTTGTGAGCGGCTTCCTGGAGCGCATCTTTATGGCCACACCTTCCTGTGCCCTTGTGGCCACAGAGCTGGGCTACCTCTTCATCCTACACCAACAAGTGAAGGAAGCCTGTCTGTGGTACAAGGAGGCCATGAAGCTGGAGGAGAACAGGCTGGCTGCCTTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:8
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:
NO
A:
NA
C2:
PF134141=TPR_11=PU(64.1=63.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCGACCGGGTCAGAAA
R:
CAGCCTGTTCTCCTCCAGCTT
Band lengths:
278-1315
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: