MmuINT0166954 @ mm9
Intron Retention
Gene
ENSMUSG00000039021 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:MGI Symbol;Acc:MGI:2443048]
Coordinates
chr2:32624618-32625786:-
Coord C1 exon
chr2:32625572-32625786
Coord A exon
chr2:32624863-32625571
Coord C2 exon
chr2:32624618-32624862
Length
709 bp
Sequences
Splice sites
5' ss Seq
CCGGTACTG
5' ss Score
5.61
3' ss Seq
CCTGCCCTGCAATACGATAGGGG
3' ss Score
2.43
Exon sequences
Seq C1 exon
GCCAAGCTCTGCTATCAGGACCTTCGAAGCGCCTTGCTCCTAGATCCCTTGCACGCACAGGCCAAAGGGCTACTCCAGAAGATGGTGGACCAGGCCAAGCAGTCTCTCCAAGATGCCAGCACCCTGGCCGTGCAGGGCAAGGTGCACCGTGCACTGAAGTGCATCAACTGTGCCATTGAGAACAATCCCCTGGATCCCAACTTCTTCTTCTTCCG
Seq A exon
GTACTGGGGTACAAAGGGGCTGGACCTCCTGCAGACCTGCTTCGTGGTCTCAGGAGGGTCTCTCAACCTCCCCAGACTTCAGTCTCTCTCTCTCTAACCCCTAGTAACCTTTCCCTGCTTTTGACTGTGGTCATGGCACCATAGAGGTGGTTTCCATGGTAACCTGGGAATCTTAGGCCTCCAGCCAGGCCTGCTGAGTAGTTTGTGTTGGGAGGACATGAGAGTAGAAATTGTATCTGGTCCCCCAAGGATTTGGTGCCATTCAATCTCCCTAATCCTGGATTTTCTCCTCTAGATAGTTGGCTAAAGTATGTATACAAAAAGGCCTGAACAGGGGCATGTGATGGCTCATCGGGTAAAGTAGCTTGCTGAACAAATCTGTCAGCTTGATTGAGTTCAATTTCCAGAAACCCATAAGATTCCCATAAACTAAGTACATGAAGTTATACTGAACATAGACACTAGCACATATACCACTTCCAAACTGGAAAACCATCCTTGAGAAATAACAAAATCCAGATGACTAAAAGCTTATCTAAGTAGCAATCTCAGGCCAGCTCCAGAGGACAGATCTAGGGTTTGAGGCAGAATTTATGAATATAGTCAAGGCCATGGGGTCAGAAGGTCCAGGGTGGACAGTAGCCTTCTAGCCAAATGGATTGCTTTAGTTCTCATGTCCCTCCCTGCTACCTGCCCTGCAATACGATAG
Seq C2 exon
GGGCACCTTGCGTAGACGGCTCCAGCAATTTGACCATGCTGTGGAAGACTTCCTGAAGGCAATGGACATGGTGACTGACACCCAGGACAACCTAGTGAAGCAGGCGCAGCGTCAGCTGCTGCTGACTTACAATGACTTTGCTGTGCACTGCTACAACCATGGTGCCTATCAGGAGGGCGTGCTGCTGCTGAACAAGGCTATCAGAGACGAGCAGAATGAGAAGGGCTTGTACATCAACCGTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039021-Ttc16:NM_177384:8
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:
PF134141=TPR_11=PU(62.7=58.3)
A:
NA
C2:
PF134141=TPR_11=PD(35.8=28.9),PF134141=TPR_11=PU(64.7=53.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTATCAGGACCTTCGAAGCGC
R:
AGCAGTGCACAGCAAAGTCAT
Band lengths:
356-1065
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: