MmuINT0167069 @ mm9
Intron Retention
Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66022386-66024278:-
Coord C1 exon
chr2:66024211-66024278
Coord A exon
chr2:66022901-66024210
Coord C2 exon
chr2:66022386-66022900
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
GTTCTTGAAGCACATCCAACTTACCCCAAAATCAGAAAGGATATACTTGATAAGGCGCGTGCATCTTTAAGACCTTGAAAATGATTTTTACTGAAGTGTTGGGCAAGAGATGACAGTGGTCCCTCAGCTTTCACAGTCTTTGCAGTTGACACAGGCTCCAGCTGACAGTGTGACAGAAGTGTGTCCTGCCTTCTCCAGCAGAGGCTGCTGCTGTCCGTGGACAACACTGGTCTGTGGCATCCTTGGTGGAGTGGCTGGGTGAGAGCTCATCTTTCTCCCTTCCATTAGGCACAATGGTAGTTCTGTGATAAAGCTTAACTCGTTTCTACAGAGGATATTTTTGTTAAAGTCTGGGTGATATATCTTTTCTGAAGAGTATTAGATTTTCCAACAATTCTATTTAAAGTCTACTGTCATCTGTTAATTTTCTATTATAGTTTGTGATATAATCTCATGTAATTTATGAAAAATGAATACATATTTTAAATGTATATTTTAATAAAGATTTTTGTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF145591=TPR_19=FE(33.8=100)
A:
NA
C2:
PF145591=TPR_19=PD(20.0=50.0)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: