MmuINT0005464 @ mm9
Intron Retention
Gene
ENSMUSG00000054672 | 5830411N06Rik
Description
RIKEN cDNA 5830411N06 gene [Source:MGI Symbol;Acc:MGI:2443685]
Coordinates
chr7:147484259-147485015:+
Coord C1 exon
chr7:147484259-147484282
Coord A exon
chr7:147484283-147484877
Coord C2 exon
chr7:147484878-147485015
Length
595 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
CCTCTTTCTGTGCTTCACAGGCA
3' ss Score
10.32
Exon sequences
Seq C1 exon
GTATCCCTGGAACCATGGCATCCG
Seq A exon
GTAAGTGGCTCTTAGTTAATACTTCCTCATTACCTGGATAGCCTGCAGTGGTACTCTTTTCTTTCCCGAGAACCTCTGAGACCACACGCCATGGGCACACCCTCTGTGTCAGGTATAAGCCTGTGGGTTTGGACTTCTAGTCTGTGCTGAAAATGCTTATCTCTACTGTGCCTGCTGAATGGGAAAACATGGGGGACCAAACTACCCGGTCATGAGCAGCCGCTTCTGCAGGCCTTTAACTTAGGGATTGTGCAATCTTGCCTTGAGTATGTGCTATCCTTTTAGATGGCATGCCTAGAGTAGAATAGAGAAGAGCAGAGCAGAGCAGAGCAGAGCAGAGCAGAGCAGAGCAGAGCAGAACAGAGAATACTGTGGACACCCACATGGACTTTCTAGGCCTGAGCACTTGGGCTCTTTCTTCTGGAGCATCTTGCCCAGTAGCACACAGATCATCTCAGAGCAGCTACTTGTCAATATAACACTGACACCAAGCTGTCCTCAGTGGCTCACGGGGAGTCTGATGTCATCCAGGCTCAGTGTCAGCCTGTCTTAGGTACACAGTAAATGATTCTCTACCTCTTTCTGTGCTTCACAG
Seq C2 exon
GCAATTCTTCAGCTCCTCCACCTGTTCCTGAGTTCTGGACCATGCCTGAGATTGCCTGTCTGGTCCTTGGCTGCCTCTTGGGCATAGTCTTTCTGGTCCTGGCTGTTCAGTGGTGTCATAGCAGAGCCATTGGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054672-5830411N06Rik:NM_001128145:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.191
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: