MmuINT0165501 @ mm10
Intron Retention
Gene
ENSMUSG00000019487 | Trip10
Description
thyroid hormone receptor interactor 10 [Source:MGI Symbol;Acc:MGI:2146901]
Coordinates
chr17:57255273-57257344:+
Coord C1 exon
chr17:57255273-57255467
Coord A exon
chr17:57255468-57257234
Coord C2 exon
chr17:57257235-57257344
Length
1767 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
GACCCTGTCTCACCTTGCAGACC
3' ss Score
11.91
Exon sequences
Seq C1 exon
GACTCACAGGTCCTCATCGAATTACACAAGTCCGGGTTTGCCCGCCCAGGGGACTTGGAATTTGAAGACTTTAGCCAAGTTATCAACCGAGTGCCTTCGGACAGCAGCCTGGGCACCCCGGATGGCAGGCCTGAGCTCCGAGCAGCCTCCAGCCGTAGCCGCGCCAAGCGTTGGCCTTTCGGGAAAAAGAACAAG
Seq A exon
GTGGGGTCCGGAGCTCTTGGGGTGAGGAGTGGGTGGAAAGGGGGGATAGTCAGCCGAGGTCCTCATTGAGTCAGCTCCAGCCACATGGAACACAAAGTCCTGGGGCAGGAATTTTCCTCTTGGCTGTGGGCCCAGGCTGGAGGGAAGGAAACAGAGGAAGGCAGGCCCGAGAGCCTACTCGCTGGCTTCCGAGTCCCTTTGAGCATGAGAGGGGACAGGGTTGGGGGCCTGTGGCATCTTCTGCTGAATCCTAAGACCCTTGAAGAGCTCATGTTGGCCTGACAGCTGTGGCATTGCCACCCAATCCCTGGGAGTCGTCCTTCCCTATCTCCAGCCTCTATGATTTTGGGGACCCTCCACTTCCTGTGCATTTTCTCCTTGGGAATTTGACTTTTAGGGTCCAGTGTATACCTTGACACCCCTTGGTTTATCCCTCCCACAGTTACTCTTTCTTTTAGCTATACCTTGCAGTTGTTTTTTTTTTTTTCTTTTTGTTTTCCCTCTTCTTCTTTTCCATCCCATTTAACTTAGACTTCTCTTACCTGACACCTGCCATCCCTCCTCCCACCTGCCATCCCTCCTCTCTTGAACTTGGACTTCTGGAGTAGGCAAGCACCTGATATCTCCCACCTCTCATCTACCTGCCTGTCCCCCTTAGCCTATGTGTCTGACCACCCTGGTTCTTTAAAAAAAGATTATTGCTTTTATTTATTTGTTTATTATGTGTATGTGTGATTGCTCAAGCACATGTAGATGCCACGGAAGGACTTTCAGGACACAGTTTTCTTCTGGTCCCAGGGATCAAACTTAGGTCATTGTACTTGGTGGTGGCAAGCAGTTTTTTGTACTGAGCCATCGCTTTGTCCCCAGCCTTTAGTTCTGTCATGCACCCCTACCTTCTAGACTGTAATCGCAGAAAGCCTGGCAGGTGTCTCACCTCCTGGGGTCCTGTATGAGTCCCTAAGACTCAAGGGACAAAGAAGGCTTGGGGAGTGACTGGCACCTGCCTCACAGTCTTTAATTTATTAACTTTTTATATTTTGGGGTGTATAGAGGTCAGATGATAGCTTATGGGTATCAGTTTTCTCTTTCTATCCTTGGGTGCTAGAGGTGGAACTCAGAGCTTGGCACAACCCCCTTTCCCTGCTGAGCCCTCTTGCTGGCCCTGGCTCCCCTTCTCTTGCCTTCTCTGGCACCGCCCAAACCTTCCGTTGTTGCTTTTATAGGTGTTTTCTGTGTGATCTTATCATTCAGTTGTGGTTTTCTTATCATTATTTTTCCCTCTTTCTCCATTTTGTTTTTCCTGTTTCCTGTGTCCTGTCCGTCCATCCTTCTCCGACTACATCCTCGCGCCTCCATACCTGACCCCCCTTCCTGGGCTCCCACGGTTAGCCACGTCCCCCATCCCTGTCCCTCCTGGGGGGTCACCTACCCTCCACACTGTCTGATGGACCCTCATCCCCCCGTTCTGGCCGCGACCCCTTGGCCATACTGAGCGAGATCAGTAAGTCGGTCAAACCGCGGCTAGCATCCTTCCGCAGCTTCCGAGGTGGCCGTGGGGTAAGTTAAGGCCGGATGGTGGGACCCTGGGCTCTTTCCTGCCGCCTGCTGGGTCCCCCCCAGATTCCAGCTTTGCTCTGTGCATGGCCTCACTCCCTAAAATCCCTGCTAGGGGAGGAAGGTGGACCTGGTATCTCAGGAGCGAGAGAAGTGCTTGGGAAACATAGGGTCGCAAATCCTGAACTCAGACCCTGTCTCACCTTGCAG
Seq C2 exon
ACCGTGGCTACCGAAGATTTCAGTCACTTGCCCCCGGAGCAGCAGAGAAAGCGACTTCAGCAACAGCTGGAAGAGCGGAACCGAGAGTTGCAGAAGGAGGAGGACCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019487:ENSMUST00000019631:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.554 A=NA C2=0.982
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF143891=Lzipper-MIP1=PU(34.5=78.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCACAGGTCCTCATCGAA
R:
CTGGTCCTCCTCCTTCTGCAA
Band lengths:
303-2070
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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