MmuINT1002927 @ mm10
Intron Retention
Gene
ENSMUSG00000078776 | 9530053A07Rik
Description
RIKEN cDNA 9530053A07 gene [Source:MGI Symbol;Acc:MGI:2442118]
Coordinates
chr7:28154189-28155687:+
Coord C1 exon
chr7:28154189-28154805
Coord A exon
chr7:28154806-28155143
Coord C2 exon
chr7:28155144-28155687
Length
338 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCCCCTTTCCACATCCACAGGTG
3' ss Score
11.84
Exon sequences
Seq C1 exon
AGATCACCTGCCCTGTCAACAGCCACTACGAGCTCTGTGGCCCACCCTGCCCAGCCAGCTGCCCACCCCCTGCACGACACACAGCCCCAACTGCATGTGATGGGCCCTGTGTGGAGGGATGCCAGTGTGACAAGGGCTTCGTCCTGAGTGCTGATCAGTGTGTTCCCCTGGATGGTGGCTGTGGCTGCTGGGTCAATGGCACATACTATGAAGCAGGCACTGAGTTTTGGGCTGATACCACCTGCTCTAAGAGGTGTCACTGTGGACCTGGAGGTGACTCCTTGGTCTGCAAGCCTGCCAGCTGTGGGCTGGGTGAGGAGTGTGCCTTGTTGGCCTCTGGAGAGATCGGCTGCCAACCTATAAGCATAGCTGAATGTCAAATACTGGGTGATCCCACATACATCACCCTAGATGGGCACCGGTTTGACTTCCAAGGCACCTGCGAGTACCTGCTGAGTGCACCCTGCCATGCACCACCCACAGGGACTGAATACTTCAATGTCACCGTGGTTAATGAGCATAGGTGCAGCCAGGCTGTCAGCTACACACGAAGTATCACTCTGCGAATCTATGGCCTCAGCTTGACCCTCAGTGCCCACTGGCCCAAGAACCTACTG
Seq A exon
GTGAGTGGGCTGTGGCCCCACAGAATCCATTCCAGTCTCTGGTGTACAGAGCATCTTTCCCAGCATGGCGGGAGTGTGAGACCGGTTCAGCTTAGAGCCTGTGGGACCAGGAAGACTGGAGGCAGTGGTTTCCCCAGGCTCAGCCTTCCAGTATTCCTCTGTAGGGTAGATTGTTAAAAGGTACCTGCTTAAGGGTAGCACAAAGAGCCAATGTACTAGTCTGTGCTATTACTATAACCAGAAATCATGTGTCTTAATACAACTGATTCTGAATGGTGTAGGTAAGATTGAAGCACAAACACACTGGACTCAGCTGGTTCCCCTTTCCACATCCACAG
Seq C2 exon
GTGGATGGAGAGATGGTCAAGCTGCCGTTCCAGCTGCAATCACGGCTCCTTGTTCACCTAAGTGGCATGGGCTTGGTGGTACACACCTCCTGGGGGCTCTCCCTGACTTTTGATGGAAACAGTTTCATGCGCCTGCGCGTGCCCGCAGCCTATGCTGGCACCCTCTGTGGCCTGTGCGGCAACTACAACAAGAATCCCAACGATGACCTGACTGCAGTGGGCGGGAAACCTGAGGGCTGGAAAGTGGGCGGATTTCCAGACTGTGACCAATGCCAGCTTAGGACTTGCCCAAAACCCTGTACACCTGAGGAACGGAAACGTTTTGGTGGCCCCAATGCCTGCGGCATTATCACGGCCCCCGAAGGCCCACTAGCGCCCTGCCACAGCTTTGTGCCACCCACGCAGTACTTCGAGGCTTGCTTGCTGGACACCTGTCAGGTTCAGGGACATTCAGGAGGCCTCTGTCCTGCTATAGCCACCTATGTGGCAGCATGTCAGGATGCCAGGGTCCGACTTAGAGAATGGAGAAAGCCAGACTTCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078776:ENSMUST00000150948:12
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=0.011
Domain overlap (PFAM):
C1:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=27.2),PF127142=TILa=WD(100=28.2),PF0009420=VWD=PU(51.0=38.8)
A:
NA
C2:
PF0009420=VWD=PD(47.8=41.2),PF087426=C8=WD(100=41.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGAATCTATGGCCTCAGC
R:
GGCAAGTCCTAAGCTGGCATT
Band lengths:
346-684
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