MmuINT0167057 @ mm9
Intron Retention
Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66060711-66061682:-
Coord C1 exon
chr2:66061572-66061682
Coord A exon
chr2:66060850-66061571
Coord C2 exon
chr2:66060711-66060849
Length
722 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTGACATGGACTTTGTTTAGGCA
3' ss Score
4.51
Exon sequences
Seq C1 exon
CCAGAAGAAGCCATAGTGGCCTATGAGCAAGCACTCAATCAGAACCCCAAAGATGGAACACTGGCAAGAAAAATTGGAAAAGCACTTGTCAAAACTCACAATTACTCAAAG
Seq A exon
GTAAGTGCTTCACACTCTGTGATACACCTGGTGGGTCAAGTCGGTCGAGACATGCTCTAGAGAAGTCTTCAGCAGCCACCCTCCACATCTTTGGTGATTTTAATCTCCACATTTGGGTGGGCACACTGGTATTTGTGCCGTTAGAGTTTCCTGGGGCCTCGCTTTCTCCAGTGCCGTACTCTGTGGAGATTGTTCTAATGCTACCTTTTCCTTTGTGTTTCTTATATCTCAGTGTTTGCAACCAAATAGTGGCCATAAGGTCACTAATATCACATTGTATAATGTACAGTATAGTGTAGCCTAGCCATTTCCGTTCTGCTGCACCAGCTTGGCCAAGCTATGTGCTTTAAGGTGGTTGTGCTGTTGCTGTTGTTTCTAGTAGGATAAAGGATTGCCCTCGACTGTGTATTCTTTTGCTAGTCCTGGTCACTGTTAAGTTTATGTGCACCAACTAGGAAAGCAGATGCATTTGAGAAAGCTTGCTTACCTTAGAATAATCTCCAGAGAAATATTTTTGCCAAGTACTGTTCGTTATCCCTTGATTGTTTAAAAAAAGATGTTAGTCGCTATGATTCCCTAAGAAAAGTGGCATACTTCACTGGCAGCACGGATACGTGCCTAAATGCTTAATATATTATTTCTGGTTATAGATGTGCCTTATGCCTTGGCTGTATGGAGTCTCTGTGCTCTTTTTAAACCTAATTGACATGGACTTTGTTTAG
Seq C2 exon
GCAATCACCTATTATGAAGCGGCTCTGAAAAGTGGACAGCAGAATTGCCTTTGCTATGACCTGGCCGAGCTGCTACTGAGACTGAAGCTGTACGAGAAAGCAGAGAAAGTGCTCCAGCACTCTCTAGCTCATGAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=FE(55.4=100)
A:
NA
C2:
PF134141=TPR_11=PD(15.4=21.3),PF134241=TPR_12=PU(45.5=74.5)
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:
ATAGTGGCCTATGAGCAAGCAC
R:
TGAGCTAGAGAGTGCTGGAGC
Band lengths:
230-952
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: