MmuINT1002928 @ mm10
Intron Retention
Gene
ENSMUSG00000078776 | 9530053A07Rik
Description
RIKEN cDNA 9530053A07 gene [Source:MGI Symbol;Acc:MGI:2442118]
Coordinates
chr7:28156527-28158108:+
Coord C1 exon
chr7:28156527-28157095
Coord A exon
chr7:28157096-28157534
Coord C2 exon
chr7:28157535-28158108
Length
439 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TAATTGACCTTTGCATCCAGGTG
3' ss Score
7.01
Exon sequences
Seq C1 exon
CCCTCCAGTGCCCTGCCCACAGCCACTACCAGCTCTGTGGTGACTCCTGCCCTGTGAGTTGCCCGAGCCTCTCCGCCCCTGTGGGCTGTGAAACCATCTGCCGTGAGGGCTGTGTCTGTGATGCTGGCTTCGTGCTCAGTGGTGACACCTGTGTCCCTGTGGGCCAGTGTGGCTGCCTCCACCAAGGGCGCTACTATGCGTTAGGTGCCACCTTCTACCCCGGCTATGAGTGTGAGTGGTTCTGTGAGTGCGGGCCTGATGACCAGGTCACCTGCAGGATAGAGACCTGTGGGATCCATGAGGAATGCCGGATAGAGGATGGCATCCGGTCCTGCCATCCCAAAAGCTCTAAACTAATGCTGGTCCTTCATGGTACCCATTATGCTACGCCTGATGGCTTGGTCTATGACCTTTATGGCTCCTGCTCCTACATCTTGGCCCAAGTTTGTTTTCCGAAGCATGGAGAGGAGGCGTTCTCCATTGTGCTCGAGAAGGACTTAGCTGGAAACCCCCAGCGGGTGGTGGTGACCGTGGCAGGCCAGGTCGTGGTGCTGGCGAAAGGGCCACAG
Seq A exon
GTGAGTGCACACGACCCTGCCCATGGTTCTACAGGGACACAGCCCCACCTATGAGGTCATCTGAAGTCATGCCCCCTTTTTTGGGAAGGTCTTGGGGGGGACACTGACCAACTTGAGAGTCCTAAGAGCACTGAAAAACACCAGTGGGAAGCACGCAGTAGGGAGCACGCAGTAGGGAGCATGCAGTAGAGAGCACACAGTAGGGAGCATGAAGTAGAGAAGCACCCAGAAATTGCTGTTTTAGAAGGCAAAGATACCACCCTGAAGCCTGTTGGAGACATGGCCCTATCCCTACCCTGGGAGATTAAAATGACCTCACTCCAGTCTATCGAAAAAGCACTTAGCTCTGCCATGAGGGTTTAAGAGAGACAGTGCTCTTTGCCTTCCTTAAATGGATGTTCTCTGACCCCCCCCCAACTTAATTGACCTTTGCATCCAG
Seq C2 exon
GTGACCGTGGACAGTGAAGTGGTGGCACTACCCATGGTTGTAGGATCCATATATATAACCGCTGAAAACCGAAACGTATTTCTGCAGACAAAAAGTGGGCTAAAACTTCTTTTTGATGGCGATGACCATATCCTTATATCCATCCCGAGTCCCTTCCGTGGGCGTCTCTGTGGCCTCTGTGGGAATTTCAATGGGAACCAGAGTGACGACTTTGTGCTGCCCAGCGGAGTGGTGGCCCCCAACGTGGAGGCCTTTGGAGCTGCATGGCGAGCTCCCGGCTCCTCCTTGGGCTGTGGTGAAGGCTGCGGGCCCCAAGGCTGCCCAGTGTGCTCGGCAGAAAAGAGAGAATTGTATGAGGAAAACGATGCCTGTGGGAAGATCCGAGACCCCCAAGGCCCCTTTGCAGCTTGCCACAAGGCTCTGAATCACTCGGAATACTTCCACCAATGTGTTTTTGACCTTTGTACCCATCACGGAGACAGAGACTACCTCTGCCGTAGCCTGGCTGCTTATACTGCAGCCTGTCAGGCAGCTGGGGCAGCAGTGAAGCCCTGGAGGACAGACAGCATCTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078776:ENSMUST00000150948:14
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:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=28.4),PF127142=TILa=WD(100=29.5),PF0009420=VWD=PU(46.6=35.8)
A:
NA
C2:
PF0009420=VWD=PD(52.1=39.6),PF087426=C8=WD(100=39.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCCCAAGTTTGTTTTCCGA
R:
AAGTCGTCACTCTGGTTCCCA
Band lengths:
346-785
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