MmuINT0167027 @ mm9
Intron Retention
Gene
ENSMUSG00000032514 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:MGI Symbol;Acc:MGI:1921302]
Coordinates
chr9:119865952-119867254:+
Coord C1 exon
chr9:119865952-119866190
Coord A exon
chr9:119866191-119867181
Coord C2 exon
chr9:119867182-119867254
Length
991 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGC
5' ss Score
5.25
3' ss Seq
GCAGTTGATTTCTCCTGTAGGGA
3' ss Score
7.08
Exon sequences
Seq C1 exon
CACGAGGCCACCAAGATCATGCAGGACGCCATCAATGAGTTCAGCGGCACGCCAGAGGAGATGCGCATCACGGTCGCCAACGTGGACTTGGCTCTGAGCAAGGGCAACGTGGACCTGGCGCTGAACATGTTAAGAGGTATCACACCCAAGCAACCCTGCTACACAGAAGCCAAGGAGAAGATGGCCAGTATCTACCTGCACACTCGCAAGGACGTGCGCCTCTACATTGGCTGCTACGT
Seq A exon
GTAAGCTCCATCCACAGCAGGTGGCACCTTCACCCCACCCCCGAGCCCCGGGCTGCTGGGGGGTGGGGGGGATTCCTCAGGTTGTATACCTTCAACTGGGTCTCCCTCCAGAGTGTATCCCCAGAGCACATTAGACCAAGGTATGAGCACCTCATAGGTCTCCCTGCCTGTGGGTGAGTTCTGAGGACCTGCTGCCAGCCCCTCCCCCACATCTCTGTCCCGATGGCTGACATTCTGTTGGAAGGGTCTGAGCCTGGATCCCAGCACGGATGCCAAAGGCGTAACGAGAACACATTTACACTCTGGCCCCTCACTCTGCCTTTCCTTGAAGAACTATGGTGCAGGGCCTCTGAGATGGCCAGTGTGGGCTGGGTGAGGAGAGATTGGAGCGGAAGGTGGTGGCCCCCACCCTCTGTCTCCCAGGAGTTGGTGTTATGATCTCAGGGGGCCTCCCCAGCCTCTTTCTCTGGTAAAACTAGTTTGGAGGTTGGAAAACTGGGAGTGTAGAAACTGATCGACAGTGTAGCCTGTCCGGATTGGACGTTCTCGGGGAACAGTGGGGGGCTGGAGTGGGGGTGGGGTGGGGGTCTGTGGCGACACGCTTGCCAGGCGTATGCTGGCTTCAGTCTCAGCGCCTCAGGAAGAGGATGAGTGTCCAGGGATGTAGCTTGGTTATTGAGTGCTTGTATACCATGCACAAAGCCCTGTGACATAAACCAGGTGGGGCAGGCCACGACTGTAACCCCACGCTTGGATCCTGCCTGTCTCAAAATCCAACCAAACCCAAACAAAGAAACACGGAACACAGTGTGGCTGTTCATGGAGAAGGGCTGGAGGGCCGGGGTGGCCCCCAGCTATGGCCGGGATGGAGGTGAGAGCCTGGCTAAGATGGCTCTCAAGGTTCCCCCAGGATCTCCGTGACTCAAGAATGGTGAGCAGGTGAGCATTAGGCAGGCCTGGGCCTGAGAGCTGCAGTTGATTTCTCCTGTAG
Seq C2 exon
GGAGCTTTGTGAACATCTGCCCGGCCCCCACAGCAGCCTGCTACTGGGTGACGCTTTCATGAACATTCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032514-Ttc21a:NM_028735:15
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(21.5=56.0)
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:
CACGAGGCCACCAAGATCATG
R:
TCCTGAATGTTCATGAAAGCGTCA
Band lengths:
311-1302
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: