MmuINT0167061 @ mm9
Intron Retention
Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66046711-66048237:-
Coord C1 exon
chr2:66048049-66048237
Coord A exon
chr2:66046822-66048048
Coord C2 exon
chr2:66046711-66046821
Length
1227 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CTCTTGATTTTGCTGCCTAGATA
3' ss Score
6.12
Exon sequences
Seq C1 exon
GCTCGAGAGCTGCAGGCTCGGATATTGAAGCGAGTTCAGATGGAGCAGCCAGATGCAGTTCCTTCACAGAAACACTTCGCAGCTGAAATTTGTGCAGAGATTGCGAAACACTCCGCCGCTCAGCGAGACTATGAGAAAGCAATTACATTTTATAGAGAAGCCCTGGTTCATTGTGAAACAGACAGTAAG
Seq A exon
GTCAGTAGGGCTGTAACAAGGCTAAGTACCTTTATTCCAGGGACCATCTAATCGGCTCAGGTGGAGAAGTCTGATTAGATTATTAATAAAGAAGATTGGAAAATAAATGCAGCAAAAACAAATATGTTTATAAAAACAGTTGTTTCTGGAAAACTTTCAGCATGCACGTGGAGCTGGGAGTGGAAGTGCACGGTATAGTGCTGGTCTAGCCTGTGCCCAGCTCTGAGGTAAGTCTCCAGCAATGCAAAACCCAGTGGTGCCTTACATTGGAGGACGGCAGAGTGAAGTATTTGCCACCCAAGCACAAGGACCCGAGTTTGATACCTTGCGTTCACCGAGAAGCTGTAGGAAAAGCTGGGTGCAGCACCACACACTTCAGCCCAGCACTGGCCTGTCAGAGACAGCAGGAGGATCACAGGGCGGCTGCTGGACACTCAGCCTCTCTGGATGGCTGAGCTCTGGATTTAGTCAAAGACCCTGTCTCAAAACATGTGATGGAAAGTGACAGGGTACTGCACCTGATGTTGACCTCGCGCACACGCGCGCGCGCGCACACACACACACACACACACACAGATCCACTCACAAGCATACACAATTTGTAGTGGAATAAGTAATGTTAACCAAATCTGCAATTTCCTTACCTTCATAGTCAGTTTAAAGCTGTTTTTTAGTCCCCTCCTAGGCATAGGAGGTTGGACTTAGTTAGATGAGTACATACACTCCAGCATCTGTATGTCAGTGGCACCTTGGTGCTGGGACTGTGAAAGGGACATTAGTGACTCCCATCACTGATGGCATACCTTTTGCTAAGGCATCCACAAGCAGACTCCTTCTCAGTGGTGGCTAAGAGAGTTGAAGCACTGGTTGTGCTCAGAGAAGCTTGTCTTAGCAATTGTCTACCTAGCTGCACCTTTCTCATTTTACTAATGAGAAAACATGTTTAGAGTTTGCCCTGCTCCTTTCACAGGAGTTTGTACTGAAATCCTGTATGCTGCTTTAAAATCAGCAATACCTTTTGTTTGTATTTATCAAGTGAGTTATCACCTGCCTTTTGTCTTTTCCTGAAGAGTTAGTAGTGATATACGCACCTGTCGTTCATGTTGTCTTTTGTACATGGCACTTTTATTGCGGTAACTTTTAGACAAATGAAGATTAATGTCATGCAAACATTTGCTCATTTTATTTTGAAGCCAGTTTATAACTACTCTTGATTTTGCTGCCTAG
Seq C2 exon
ATAATGTTGGAACTGGCGCAGTTATACCTGGCCCAAGAAGACCTTGACGCCTCCCTGCGACACTGTGCGCTGCTTCTCCAGAGGGACCAGGACAATGAACCTGCCACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:20
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:
PF134241=TPR_12=PD(6.5=7.9),PF145591=TPR_19=PU(36.8=39.7)
A:
NA
C2:
PF145591=TPR_19=FE(52.9=100)
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:
TGCAGGCTCGGATATTGAAGC
R:
ATGGTGGCAGGTTCATTGTCC
Band lengths:
289-1516
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: