MmuINT0167069 @ mm10
Intron Retention
Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66184327-66186221:-
Coord C1 exon
chr2:66186154-66186221
Coord A exon
chr2:66184844-66186153
Coord C2 exon
chr2:66184327-66184843
Length
1310 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
GTTTGGTTTTGTTTCCCCAGGTT
3' ss Score
9.75
Exon sequences
Seq C1 exon
GATACAAATTGGCATTTAATTACCTAAAAGCAAAACGATATGTGGATGCAATTGACGTATGTCACCAG
Seq A exon
GTAAATTTCTTAAAATAGTACAGGTGGAGTCTGGAAAGATGGCTCAGCTCTTAAAGGCTAAGGCTCATAACCAAAAGTAGCAATGCACAATTTCCTTCTACTCTCAAATGTCACTGAACAGTAAGAAATAGAAGATGTGGTTGTTTAGCTAAGTAGTTTATTAAATAAGTTATGGAGAAATTATTAGTGTTCGGTTAAAATTTTAAAATGTGTCTATTTAAAGCAAGGATATATTTATAATTAGGGTTTAAATAGTAAAGGATTTGTGTCAATTTAAAGAGATAGGCTAGTAGGGAAAACCTGTTCGACAAAATCCAGTTTGGATGGTATCTGAAGGGCCGGAGAGACGGCTCAGCAGTCAGCAGCCTCTGTTGCTCCTGCAGAGGACCCCGGTTTAGTTGCCAACGCCCATGTCCAGCTCTCAACCATCTGTAACTCCAGCTCCAGGGCCTCCTCCATCCTGCTCTGGCCTCTGCAGGCACCAGGGACACTTTTGCAGATAGCATTGATTTCCCAGGTCATTCTATTAAGTGGGACATTTTGTGATTATATCTATCTATTGAAGAACTTTTTATTTATAAATTATAGCTAAAAATACTCCATAATTTAGGAAGTATTTCTGCATTTCATTGCACTAAAACCCTACAATTAAAATGGCATCTTTAACATCCTTCCAGCTTTAGAATTTCCATAGCGCTTTGTGTGTGCCATGTCCCAATGGAGCTCCGTTCGAAGAGGGCCTTACCATTTTTCACAGCTCTTACTTCAGATAGTTGTGTCCCAGTATTATTGTGGTAAATACCTGGCTATGGGATTGCTGTTGACTGCTAACTTCTGTGAGGCAGTGTTTCAAACTAAGGATGAACACTAACCCAAGGCTATGTGTGCAAATCACTTGTGGACTTCTATCTTTTTAAATGAATAGCTTCTCCCTCTCAGACATAGCATTGCTGGAAATCAGAATGTTCCAAAATCAGTCCAGGTAAATCTGATACATGCTCTCGGTTAGTAAAACCCTCAAAGAGGATATTAGACATGACAAGAAGCTAAGTTACAGAAGTATTATAAGTTGTCTTCTAAGTCACCTGTTAAGGAAACTTGTATGAGATGTTTCCATGGGTAGTTCCACATTCTGTGACTCTTATCTGCTCATCTCAATGAGTCACCACTCATGCGGTGATTGTCACCTTTGATGAGTGTGACAGTGTTAATACAGTGAACTCTTGCCCATAATGCGCAGTTAGACTCAGAGTCATAGCTCCCTTGTTCTCAACAGTTCCTTACAAGGTAGTTTGGTTTTGTTTCCCCAG
Seq C2 exon
GTTCTTGAAGCACATCCAACTTACCCCAAAATCAGAAAGGATATACTTGATAAGGCGCGTGCATCTTTAAGACCTTGAAAATGATTTTTACTGAAGTGTTGGGCAAGAGATGACAGTGGTCCCTCAGCTTTCACAGTCTTTGCAGTTGACACAGGCTCCAGCTGACAGTGTGACAGAAGTGTGTCCTGCCTTCTCCAGCAGAGGCTGCTGCTGTCCGTGGACAACACTGGTCTGTGGCATCCTTGGTGGAGTGGCTGGGTGAGAGCTCATCTTTCTCCCTTCCATTAGGCACAATGGTAGTTCTGTGATAAAGCTTAACTCGTTTCTACAGAGGATATTTTTGTTAAAGTCTGGGTGATATATCTTTTCTGAAGAGTATTAGATTTTCCAACAATTCTATTTAAAGTCTACTGTCATCTGTTAATTTTCTATTATAGTTTGTGATATAATCTCATGTAATTTATGAAAAATGAATACATATTTTAAATGTATATTTTAATAAAGATTTTTGTGAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848:ENSMUST00000102718:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF145591=TPR_19=FE(34.4=100)
A:
NA
C2:
PF145591=TPR_19=PD(18.8=46.2)
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:
AGCAAAACGATATGTGGATGCA
R:
TCACAGAACTACCATTGTGCCT
Band lengths:
348-1658
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types