MmuINT0166943 @ mm9
Intron Retention
Gene
ENSMUSG00000039021 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:MGI Symbol;Acc:MGI:2443048]
Coordinates
chr2:32623457-32624503:-
Coord C1 exon
chr2:32624362-32624503
Coord A exon
chr2:32623623-32624361
Coord C2 exon
chr2:32623457-32623622
Length
739 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGC
5' ss Score
9.1
3' ss Seq
GCCTTGGGCATTTCCCTCAGGCA
3' ss Score
7.48
Exon sequences
Seq C1 exon
ATTGCTTCTTCCAGCTGGGCAACCTGGCCTTCGCGGAGGCTGACTACAAGCAAGCGCTGGCCCTGAGCCCGCTGGATGAAGGAGCCAACTTGCGCATGGGTGTGCTGCAGGAGAAGCTGGGCTTCTGCCAGCAGAAACACAG
Seq A exon
GTGCGCCACAGGCAGGTGTCAGGGGGCGTGGCTGAGGAGGGCGTGGTTTAGGAGGGCGTGGCTAAGGGCAGTGCTGAGGGGGCGGGGGTGGGGTGGGGGGTGGGGCTCACCAGAAGTCAGAGTTGTCTTCTGGACAGAGATTTTATTCACATCTTCACACAAAAATAATTTGATTATTTTAGTAAATTAAGCTTTTTAATGAAAAAAAAATATTCATGCATGTGTGATTCAGAATGTTATTTTCAAGGCCTACCTACCTTCCCAACTAGCCTCCCTCTAAAGACTCCTCTAAAGACTTAGATTGGTTTCCAGCACCCACGAGGCCACTCAGTTATCTGCTATCCCATTTCCAAGTGATTGATTAGGCATGCAGATGGTGCACAACATACTTGCAGGCAAAACAGCCATACAGTTGTAAATGTTAGGGCCAGGTGGAGTGGCCCATGCTACTTGGAAGGCAGAAGCAGGCAGATCTTTAAGAGTTCAAGGCTAGCCTGGTCTACATATTGAGTTGCACTAAAGTCAGGCCTATATAGGGAGACCCTGTCTCAAAAATTTTAAATAAGACAAAAAAAATTAGGGTATACCAAAGTTATAGTACTCAACTGTCAGGTCCATCAAGAAGAGACAGAAGTGGGTGGGCAAAGGCGACCAGGAGTGGGGCCCCCTAGTTTCCCTCCTTGGCCTGTAGCCACCATCTTTCCTGGAGGTTCATGGCAGCCTTGGGCATTTCCCTCAG
Seq C2 exon
GCAGTTCCAGACAGCAGAGGAGCACTTCTCGGAGGCCATAAGGCACAGCCCTCAGAAACCACAGTACTACCTGCACCGGGCCAAGTGCCGACAGTTCCTGCAGAACACTCTGGGGGCCCGCCTGGATGTCGCTACTGTACTGCTTCTCAATCCCGAGTATCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039021-Ttc16:NM_177384:10
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=0.089
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(33.8=47.9),PF134141=TPR_11=PU(20.0=27.1)
A:
NA
C2:
PF134141=TPR_11=PD(78.5=91.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGCTTCTTCCAGCTGGGC
R:
GGGATACTCGGGATTGAGAAGC
Band lengths:
305-1044
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: