MmuINT0000852 @ mm10
Intron Retention
Gene
ENSMUSG00000030858 | 1700007K09Rik
Description
RIKEN cDNA 1700007K09 gene [Source:MGI Symbol;Acc:MGI:1916568]
Coordinates
chr7:131325944-131327327:-
Coord C1 exon
chr7:131327192-131327327
Coord A exon
chr7:131326325-131327191
Coord C2 exon
chr7:131325944-131326324
Length
867 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
GTTTTGTGTCTTTTCTTAAGAAT
3' ss Score
6.63
Exon sequences
Seq C1 exon
GGATGTATAAGCCTTTTGACCTCCGGACAATAATCACGATCATCATTGGTTGCGGGATCCTGACAGCCATGTTTCTACTGATAGGACTTGTGCTTTGTCTTTACTCCAAAATATCCAAGGCTCTGAAGTCCCCTGG
Seq A exon
GTAAGAATGAACAATACCTTCCTCTAATGGGGCACTGGGGCCCTCTGCTGGAGCTGGGTCACCTCTTACTGAAGTAGCCACTTGTAGGGGGAAGTCAAGAGCCACTGTCAGGTTTGAGAGAGAAGGCAGGTGGGCACACAAGTTTGAGGGTTCTCCTTCCAGCTTGGGGCTGTGAGCTCCTAAGTTGACTGCTCTCAACCTGGACAGCATGGGCGCCAGCATCACTTTGCTGTCATTTAGACACGGAGTGAACCTTCAGCTACTTCTCAGGGCCCTGGCTGGGCATCCTTTCTACCTCAGCACTGTGGACTGGAGAAGCCAGAGGATGCCCTGGGGATGAGCTGTCTCCTATTCACACAGAGCTTGGCCATAGTGAGCTCTTCTCCACTCACTGGGGAGCTCTCATGTTCCCACAGTGCCAGTGACTTTGGGGAAAGTGACATGGGGCAAGAGAATAAAGTGGAGGACAGCTGACAGGGATGTAGGTCAGACAAGCGATGGTTTGAAGTTTGGGAGAGAAGCTTTAAGTATGAGAAAAACTGGCTGTCATGATGTCCCTTAAGAGGGACTTAGATTGTAGGGGCCAGAGCTGAGCCCAGCCAACTGCTGTGCCTTCTCTATTATCCTCCTGGGCCTGCAGGAGCCCCTGGGGCACAGTCACTCTCTTTACTTGTGATGGAATCTGGGTTTCACATGCATAGCAATTGTAGGAGAGGAAAAGATGGGAAAGGAGCAGAGAGCTTTAACCCAGGGCTGGTGTCACATGTATGATGGGTTCCAACCCTGGCCTTTCTCACAAAGCCCTCATAATTGTAAGAAGCTCACTGAGAAGGGAAATTCTAAGCTTGTTTTGTGTCTTTTCTTAAG
Seq C2 exon
AATCGCAAAGGAGGCAGATGATGAATGCTATATTGATCCATGCAAGGACCCCCATGAGAGCATCATCCTGGCCAACAGCATCCCTGCTGAGGCTTGTCATTCCTACCAGGCCAACACCATTGCTGTTGCGAGTTGCGGTCCCCTCCAGTGTTGTAATGTATGTGGTGTCTATGCAGATGTTAACTCCCTGCCACCCTGCCTTTGTAGCATAAGGGAAGGACTCTGACATGGCACCTATGGATAAAAGGAAATCTTCATGATCAGTATTTCAATTTCTTACTAGAATATTTTCTTACTCAAGCCAATTTCTATAGTGTTTATGTTGTATACTATCTAACATTGTGTTTATGTACTTTTGTATAAATGTACAATAGTGAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030858:ENSMUST00000188899:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151931=FAM24=PU(24.0=26.7)
A:
NA
C2:
PF151931=FAM24=PD(74.0=48.7),PF151931=FAM24=WD(100=55.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTTTGACCTCCGGACAAT
R:
GCCATGTCAGAGTCCTTCCCT
Band lengths:
358-1225
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