MmuINT0167054 @ mm9
Intron Retention
Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66063963-66065009:-
Coord C1 exon
chr2:66064788-66065009
Coord A exon
chr2:66064202-66064787
Coord C2 exon
chr2:66063963-66064201
Length
586 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CTTTAATTTTCGCGTTACAGCAT
3' ss Score
7.28
Exon sequences
Seq C1 exon
GTGAGAGAGTACCCATTATATCATTTAATCAAAGCACAGTCACAAAAGAAAATGGGGGAAGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAACCTGCCAGGAATGAGGAGAAGCAGAGCCTCCTCGAAATCAAAGCACAGAACTGAGGTGGACGCGAGCCATCGGTTATCCATCTTCCTGGAGTTGGTGGAGGTCCACCGCTTAAATGGAGAACAG
Seq A exon
GTATGTTAACTCAGACTGGAGCGTTGTTGTGTGTGTGTGCGTTTGTACTAATTCCCTCCTCTTTGATGTAACATGGAATACATAGAGCCATATTTCTAGTTGAATAATTTTCTACATATATGTATGTAATATAGAGAGGTCCCTTGACAAACTGTCAAATCTTATCAACTTATTTTTCCTTACTTTTCACTAAAAAGTGTATTTTGCAAGTGCCTGGGAGTTAATTGTTATTTGCTCCTGTTACTTTCTCAGTGTGCCTATGTTGGCCACCATGAAATGCATTCATGTAATTTACAATTCTGTTCCAAAATAATAGCAGGGACTCTTATTTTGGTTGTTAAAAACAAAAAAGAAAAAAGAAAAAAAAAACAAACAAACCAAAAACCCAGACATTTAATTAATACTTATAGTCTCACCTGGTTTTAGACTTTTAAATTTGAAGACTTTCCCTAAAATTGTATCTGTTTATTTTTAAATACCATGAATGTACTGACATAGATTATTAGTCACTGTGTTTTGGTAGGTAAATCTCCTCTTCGGGTAACTCATCGCCTATTTTGAACAGTCTTTAATTTTCGCGTTACAG
Seq C2 exon
CATGAGGCAGCAAAGGTTTTACAGGATGCCATCCATGAGTTTTCGGGAACTTGTGAAGAATTACGTGTCACTATTGCTAATGCAGACCTGGCTCTGGCCCAAGGAGATACGGATCGTGCATTAAGCATGCTTCGAAATGTCACAACCGAACAGCCTTATTTTATAGAGGCCAAAGAAAAGATGGCAGATATTTATCTGAAGCATAGGAAAGAGAAAATGTTGTATATCACTTGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134321=TPR_16=WD(100=60.0)
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:
ACAGTCACAAAAGAAAATGGGGGA
R:
AGGCTGTTCGGTTGTGACATT
Band lengths:
343-929
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: