MmuINT1034018 @ mm10
Intron Retention
Gene
ENSMUSG00000039021 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:MGI Symbol;Acc:MGI:2443048]
Coordinates
chr2:32773982-32774557:-
Coord C1 exon
chr2:32774391-32774557
Coord A exon
chr2:32774073-32774390
Coord C2 exon
chr2:32773982-32774072
Length
318 bp
Sequences
Splice sites
5' ss Seq
GTAGTGAGT
5' ss Score
5.8
3' ss Seq
GTCCTGTCCTGTCCTCACAGCTA
3' ss Score
9.9
Exon sequences
Seq C1 exon
GAGCCTCACAGTGCCCGTTCCCAGAAAACTCCAAAGCTAAAGGTTCCTGAAGCCCCAGAGAAGATCCTGCGACGCATCTTTGGGACCAGTCATGTGTTCTATGTTATGACAGATCCTACAAAACGAAGGATGATAGGATCAACAGTGCCTGCCAAAGTCAGAGAGTA
Seq A exon
GTGAGTGACTTCTTTGTCTCCAACTCCAGGTTCCTACTCTACAAAACCATTATTAATACTGGGTTCAGCTGCAAGCTGGCTGCTATCCCTCTCTGGGTCTCAGTGAACAGCGAGGGTAGAGGGATAAGGGGCTGATGCCCTGGAAGAGCTCCAGGAAGGTCAGCCTGGCCTCTGTGGAGCTCTGATGGCTTTTGCAGCCTCTTTACCTCAGCCCTCCCTCCTGCATACCCCATTCTAGCCCTGAGAAGGTCCTGGGCTGGTCCCAGATCAATACCAGATCCACTGCCTGTCCTGTCCTGTCCTGTCCTGTCCTCACAG
Seq C2 exon
CTATAACCAAGGCCATCAGTGCCTCCTACAAGAGGACTGGGAGATGTCTGTGCTGTTCTTCTCCCGTGCCCTCCACCTGGACCCCAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039021:ENSMUST00000066478:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(7.4=23.8)
A:
NA
C2:
PF134141=TPR_11=FE(44.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTCACAGTGCCCGTTC
R:
AGTTTGGGGTCCAGGTGGAG
Band lengths:
255-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types