MmuINT0006240 @ mm10
Intron Retention
Gene
ENSMUSG00000078776 | 9530053A07Rik
Description
RIKEN cDNA 9530053A07 gene [Source:MGI Symbol;Acc:MGI:2442118]
Coordinates
chr7:28146621-28147515:+
Coord C1 exon
chr7:28146621-28147206
Coord A exon
chr7:28147207-28147315
Coord C2 exon
chr7:28147316-28147515
Length
109 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGT
5' ss Score
9.9
3' ss Seq
CCTCCCTCTCTCCCTGGCAGCAA
3' ss Score
10.03
Exon sequences
Seq C1 exon
GTGAACGGTGTGGACATGAAGCTGCCTGTGTTGCTGGATGAGGATAGAGTTCAGGCCTTCCGGCATGGCACAGATATGGTAATCGAGACCAAATTTGGCCTGCTCGTGTCCTACGATCTCAAATACAGCGTGCGTGTCAAGGTTCCCCACAACTACTATAAACACATGTGTGGCCTGTGTGGGGACTACAATGATGACCCCAAGAATGACTTCCAGAAGTCCGATGGCTCACAGGCAGCCAGTTCCAATGAGCTGGGAGACTCCTGGGAAAAAGCTGTGCCAGGTTCTTCCTGCACACCGCGGCCTTCCTGCAAACCGGGACAGGCTTGCAGCCCGAAGTGCTACCCAACTCTGGAGAAGAAGTACCGCGGGAAAGAGTTCTGTGGGCTGATCACCAGCCCCACGGGGCCACTGGCTGCCTGCCACAAACTGTTGGACCCCCAGGGTCCCTTGCAAAGCTGTGTCTTTGACCTCTGCCTGGGTGGTGGGAACCAGAGCATTCTCTGCAGCAGCATCCATGCCTACGTGAGCGCCTGCCAGGCGGCTGGGGGCACTGTCAAGCCATGGAGAAACCAGACTTTCTGTC
Seq A exon
GTAAGTGATGGGACACTGAGGGGTAGGGAGAGGGGAAGCTTGGGAGACAGGAGTAGAACCCCAACACACACCCTGATGTCCTAGTCAGCCCTCCCTCTCTCCCTGGCAG
Seq C2 exon
CAATGGAGTGCCCCCCTCACAGCCACTATGAGGTCTGCGCAGACACTTGCTCCCTGGACTGCTCAGCAATCACCACTCCTATGCAGTGCCTGACGCCATGTTCAGAGGGCTGTGAATGTGACACTGACTTCCTGCAGAGTATCACAACCTGTGTGCCCATGGAGAAATGTGGCTGCCACTACAACGGAGTCTACTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078776:ENSMUST00000150948:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.066 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(48.7=38.8),PF087426=C8=WD(100=38.8)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=80.6),PF127142=TILa=PU(16.4=13.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTGTGGGCTGATCACCAG
R:
GCAGACCTCATAGTGGCTGTG
Band lengths:
247-356
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