MmuINT1034019 @ mm10
Intron Retention
Gene
ENSMUSG00000039021 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:MGI Symbol;Acc:MGI:2443048]
Coordinates
chr2:32772110-32773808:-
Coord C1 exon
chr2:32773665-32773808
Coord A exon
chr2:32772211-32773664
Coord C2 exon
chr2:32772110-32772210
Length
1454 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCT
5' ss Score
5.4
3' ss Seq
TGACAGCCGTGTCTCCTCAGGGT
3' ss Score
7.83
Exon sequences
Seq C1 exon
GTAGACTTCTATGTATTCCGTGCTGAGGCCTTCATCCAACTCTGTGACTTCTCCTCTGCCCTCCAGAACCTCCGCAGGGCCTACTCCTATGACCCAGGGAATAACAAGTACCTGAACCGGCTGGCCTTTGTGCTCTACCTACAG
Seq A exon
GTGCCTCAGCTGCCCCACCCGCAGGGGACTTCTCACCTTATCCCCAGCTACTGGCTTGCCCTTCACCTACAGGGAGCCTTCCTGGGATAGGATCTGAGTTCTTGGGGACTCCCGGTCTGTGCACCTGTTTACACCAGCTGCCCCCATCGCTGATTTATTAATTTAGCTGGAGGTGTCTAGAACTTCTGCAGTAAGGCTCTGACCTACCCACACTATCCAATAGGGTCACCACTGGCCACATGGAAATGTTGAGTCCTTACAGTGTGGCAAGTATGACTGAACTAAATTTTAAATTCGATTTGGGTGGGTTGGGTCCGTAAGGGGTGTGACTCAGTGGTAGGATGGCAGCTTGGCACACAGAGGGCTCTGAGTGCTGTCCCTAGTACTAAGTGGAATTTTAACTGCTTAACATTTATTTTGACATTGACTTGAGCATGTGTGCTTGTGTGTATGTGTGCATCTGTGTGCCTAGGGAGGTCAGAAGTCAGATGTCTCCTTGTACTATGTGGGTGGGCCCTGGGCATCGGCAGGCCTGATGATGAAGTGCCTGTACCCACTGAGTCATCTCAGTACCGTCAGTGTCTTTTGAAAGTTCTTTTGAAAGTCAGATATTGGCTAGAAGTTGAGTTGAGTGCAACAGTGGTAGACCATTTGCCTAGGAAAGGGTCTGAGTCCAAGCACCAGTGCCACAAAACACCAAGCCCCTCAGTTCCTACAAAGAAGCTTGGGTGGCCAGTGACACGACTGAGCAGGTAAGAGCATCTGCTTCTTAAGCCTGACTACCTCCGTGTGATAGCTGAGATGCACACGGTGGGAAGAAACCAGACTGCCACAGTTAGCTATGACTTTCACACGTGTGCTGCGGCATGTGCCTGCCCCCACACACCACAGAATAAATGCACATCATAAAAAAGAAACATTGGGCCAGACATGGTGGCTCAGGCTTGCACACTCTGCACACCAGAAACTGAGGCAGGAAGAGTCTCATGAGTTCAAGGTCTGTCTGGGTTGCATGGTTCCCGGCCAGTATGAGTTACACTGTGAAACGTTAATAAGACAAATATACCAGACAAGGCAGGAGAGCCCTCGAGGCATTCAGATAACTGATAGAACTGTTGAGGGCCTGTGTCGTGCTAGCTCACTTCCTGTGTGACCTGTGGCGAGTCACTTCACCTCCCTGATCCTGGGTTCCTTCATCTGAAATGGGGAACACTTGTGAATTCTAGACCTTTGGCCGGAGCCCCGCTGCCCTCACCTGTTGCCCCATTCTGTCTGGAATCTCTGTGTTGCTGTATTCCTCCACGTTTCTTGGTGTCTCTCTGCTCTGTATCTTGTTTCCATCTCTGTCTCTTGAAGTCTCTGTCTCTGTTCAAGTCCCTCTCCCTGTCCTCTGCCACCTGTGGAGGTCATCAGAGCTGGAGTTCTGAGCGGAGCTGACAGCCGTGTCTCCTCAG
Seq C2 exon
GGTCAGTGCCTGTATGAGCTGTGTGACTTCCAGGAAGCCCTCTGTGTCTTCCTGCAAGCCTCCGACCTCCAGCCCCAAAACGCTTCCTTCAGTTACCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039021:ENSMUST00000066478:5
Average complexity
IR
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=PD(45.6=64.6),PF134141=TPR_11=PU(13.4=18.8)
A:
NA
C2:
PF134141=TPR_11=FE(49.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTATGTATTCCGTGCTGAGGC
R:
CATCGGTAACTGAAGGAAGCGT
Band lengths:
238-1692
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