MmuINT0167076 @ mm9
Intron Retention
Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66073630-66074470:-
Coord C1 exon
chr2:66074278-66074470
Coord A exon
chr2:66073728-66074277
Coord C2 exon
chr2:66073630-66073727
Length
550 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGC
5' ss Score
8.81
3' ss Seq
TTGTTTCTGTTTGATTTCAGGAC
3' ss Score
10.63
Exon sequences
Seq C1 exon
TGTGGACGTAATCAACTCATTCTCCAGAAAGTTCAAAGTTTCCTAGAAAAAGCATTTAGTTTAACTCCCCAGCAAGCAGAAATTGCTACAGAGCTCGGCTACCAAATGATTCTCCAAGGCAAGGTCAAGGAGGCCTGGAAGTGGTACAGGACCGCCATGACGCTGAATGAGAGCAACATCTCTGCTGTCACCG
Seq A exon
GTACGCTGACACTTCCTCCCTGGGTGCTCGCCTCACGCATCTGCCCACTCAAGCAGAGAATGGAGATTTTTTTTTTAATTAAACTCTTTCATTTGTTTGTTCGTTTTTTGTTTGTTTGTTTGTTTTTTCGAGACAGGGTCTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCAAACCCAGAAATCCGACTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGTGTGCGCCACCACACCCGAAAAACAAAAAAACAAACAAACAAAAAATTAAACCCTTTCTACTATGCGTAAATGGAAAAGTCATATAGCTTTAAAAATATCTATTTAATTCTCAAATACTATCTTGAAAGAATGGATATTATTTGGTTGCTTCTATCAAGTTATGGATTGTGCAGTAAAAGAGTTTACATAGTTCCTGGCTGCCTGTTTTCTTCCCCACCCCTCCCCTGGCTGTATTTTTTTTTCCCCCAGCCATTAACTTAGTTCAGTTGGTTGGAATAGGCCCTGATTGTTTCTGTTTGATTTCAG
Seq C2 exon
GACTTATCCGATGTCAGTTAATAGAGGGGCAGTTGCAAGATGCAGACCAGCAGTTGGAGTTCTTCAGTGAATTCCAGCAGTCAATGGGGAAATCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:9
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:
PF134141=TPR_11=PU(63.1=63.1)
A:
NA
C2:
PF134141=TPR_11=PD(35.4=69.7)
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:
GTGGACGTAATCAACTCATTCTCCA
R:
GCAGATTTCCCCATTGACTGC
Band lengths:
289-839
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: