MmuINT0167055 @ mm9
Intron Retention
Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66062133-66064201:-
Coord C1 exon
chr2:66063963-66064201
Coord A exon
chr2:66062206-66063962
Coord C2 exon
chr2:66062133-66062205
Length
1757 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TAGTATTGGTCTAATTCCAGAGA
3' ss Score
2.86
Exon sequences
Seq C1 exon
CATGAGGCAGCAAAGGTTTTACAGGATGCCATCCATGAGTTTTCGGGAACTTGTGAAGAATTACGTGTCACTATTGCTAATGCAGACCTGGCTCTGGCCCAAGGAGATACGGATCGTGCATTAAGCATGCTTCGAAATGTCACAACCGAACAGCCTTATTTTATAGAGGCCAAAGAAAAGATGGCAGATATTTATCTGAAGCATAGGAAAGAGAAAATGTTGTATATCACTTGTTACAG
Seq A exon
GTAAGCAGTTCCTTGCTTCCCACCCTTCCCTCCTGAAATTAACCAGCATGGTTACTTTCTATACCTGTCATGTATGTCACAAATCCTTTACAAATCTTTGTCTGGAAATGGTCATCTTCCTTCTGCCCAGGACCACTCTCGTCAAGGGGTTTACCCTAAAACAGAACTACCATTGCTTCAGTGTGTGGCCAAGTGTGGCCGGGTAGTTTCTCAAATCTTGTTATCAAATGCTCATTTTAGATCTGATCTAAATCAAAAATTTAGATTTGTTTGTGTAAAGAAAAAACAAGAGATAGATGTACTCTGATGACAACATTATGCAGCAGTAATCCAGGGGATACACAGGCATATTTAATATGTGGCATATCTGTTGTAGAAGAGGAAAATATAAGTTAATATGTGGCAACCTCCAAGGTGTGAATTCACCTTTTCTTTTGTGAGTGAGCATAGCTTCAATAGCTTTGTCAAACCAAGGCCATAAAAGTCACTGGGACACACATGCAAGCATGTGCTGTTCTTCACAAATGAAACAGTCATTGTACAGACACACTTGGGGGGGTGTGGCTAGAAGTGAATAGACTAAGTCAGCCCTTGCTCATCAGAGTTACCTAATGTTCTAACCAAGAAGTTTGCTCAGATTCTTGTAAGTATTTAGCATTCAGAGAAACCAGCATCTTTGGTTGTTGCTGGAGGAGTGTAAATATGAAAGTATGTTTCTACACTGTTTTTAAGAGAGCCCAGTATGGTGGTTTGTAGTACTAAGCAGCCTGAGGCAGGAGAATTGCTGTGAATGAGTTTGAGAACAGCCTGCCCTATGTAAAAGTTTCAGGCCAAAGAGACTTTGTAGTCAGATTCTGCCTCCAAAAAGCAAAATAAGGGCAGTGGTGGTGCACGCCTTTAACCCCAGCACTTTGGAAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCCCGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACTCTGTCTCAAACAAACAAACAAAAACAAAACAAAAAACAAAACCCAAAAGCAGAAAAACAAACAAAACCCAAAAGGTTTAGTTTCTTTTGGATGTGCTGTGATGTAATAATGAGATTATGTGATGTAATAATGAAAAGTATGGTTTGTTTCAGACAAATCTGATTCATTTGCATAGACATGAATTCTTGGCATCATGTGTAAAGTTGAAGTAATAATTACCTTTATCGTAGAGGTTTCAAGCAGTTAAATAAGATATATTTAATGCTGCGCAAGAAGCCCGACACCGTGTTGTAAGCTTTAATTGCAGCACATTGGACAGTGCAGCAGAAGACTTGGTTAGACTTGGTTACTCTGATTGCTTCAAATGCGTAAGCAGCAGACACTGAAGCGTAAGACCTGGTAGTTTTAAGATACTTCACTGCATAGCTTTTACCTTGAAGATGAGAGCGTGGATTGTATAGAAGGACAATACAATCTTTTCCTCCTGGTAAGGAGGCCTGGAACACGAGGGTTTATGTTTGCTGTCTACCTTCACTCTGCTCCATGCAAGTCACAAAATGGAAAGAGTCAACTAAAAATGTATTTCGGTATATAAAATATATGCATATGCAGAATGTGGCTTTTAATAAGATTATATGAGTGGCTGTATTCTGAGGGCCACTGTATACTTGAATTTAATAAGCTGACATCTTATCTTACTGGTTTGTAAATGTTGCCAATTTTCAGTAAACTGAGTAGTATTGGTCTAATTCCAG
Seq C2 exon
AGAAATTGCTGAGAGAATGCCCAGTCCCCGGTCTTTCCTGCTCCTCGGCGATGCGTACATGAACATTCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134321=TPR_16=WD(100=60.0)
A:
NA
C2:
PF134141=TPR_11=PU(24.6=64.0)
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:
CATGAGGCAGCAAAGGTTTTACA
R:
CCTGAATGTTCATGTACGCATCG
Band lengths:
310-2067
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: