MmuINT0166944 @ mm9
Intron Retention
Gene
ENSMUSG00000039021 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:MGI Symbol;Acc:MGI:2443048]
Coordinates
chr2:32622993-32623622:-
Coord C1 exon
chr2:32623457-32623622
Coord A exon
chr2:32623136-32623456
Coord C2 exon
chr2:32622993-32623135
Length
321 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
GCGCTGTTCCGACCCGGCAGATG
3' ss Score
7.73
Exon sequences
Seq C1 exon
GCAGTTCCAGACAGCAGAGGAGCACTTCTCGGAGGCCATAAGGCACAGCCCTCAGAAACCACAGTACTACCTGCACCGGGCCAAGTGCCGACAGTTCCTGCAGAACACTCTGGGGGCCCGCCTGGATGTCGCTACTGTACTGCTTCTCAATCCCGAGTATCCCAAG
Seq A exon
GTGGGCTCCTGACGAGCCAGAGAGGCTCTTATCCTGTCCCCGAGAGAGACTGGTGGCATTGAGCTGCTCCCCCTACTAGCCCTCCTCCTCACTGATGTTACCTTCCCCCTCCTGCCCCTCGGGTGCAGTGAGACTCAAGCTCTGTTGTTCAGAAGCAGTTCAGAACTGTCCTGTCTGCCTCCCCACTGGGGAGCTGTCCATTGCTCATGCTCTCCTCCTCCTGGGTTAAAAGGCCCTAGCTTAGGAAGTCTACGGAGGCCTCCTGTGTTCATCCGAGGTCACGGTGGCACTAACCTTCTGTGCGCTGTTCCGACCCGGCAG
Seq C2 exon
ATGGCTGCAGTGATGAACACCCTCTTTCCTAGCATGACTGTGGAGAATGTGCTTAAGTCCCAAGTGGCCGAACTGGCCAAGCTCCAGCTAAGTCGGATGATAGAAAATGGGCCGAAGAACATCTACCCTCAGAGCACTGTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039021-Ttc16:NM_177384:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.025
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(78.5=91.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTCCAGACAGCAGAGGAGC
R:
CCACAGTGCTCTGAGGGTAGA
Band lengths:
306-627
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: