MmuINT1002129 @ mm10
Intron Retention
Gene
ENSMUSG00000104900 | 4930596I21Rik
Description
RIKEN cDNA 4930596I21 gene [Source:MGI Symbol;Acc:MGI:1925479]
Coordinates
chr1:138977656-138978240:+
Coord C1 exon
chr1:138977656-138977882
Coord A exon
chr1:138977883-138978091
Coord C2 exon
chr1:138978092-138978240
Length
209 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCCGCCCCAAATGTTCACAGATG
3' ss Score
6.99
Exon sequences
Seq C1 exon
TAATCGCTTGAATAAGAACTGTCAACCTGGAAGAAGGGGCAGCTTCATGGAAGTCAGCGACTGGCTTCTTCCACCTCTCCTATTTAGTGTTGTGGAAGCATTAGGGGCAGACTGAAGACTCTGAGCTATTCTGAGCTCAGAAATTAGTTTTGTACTACAAGAGAAATTTGGCAGAGAAGTCTGCATCACCATAGTGATAGCACCAGTTAAACTTGTGTGTGTTTCAG
Seq A exon
GTGAGACAAGGAAGACATTAGCTGTGGCTCTGCCCTTCCTCCCTTCTCCTTCCCTTCTGTGCCCTCCTCTCCTCTCTTGCCCCCTCCCTCATATTCTAGCACTGGGGATATGATCCTTGGCCTTGCGATGCTAGGGACATGCCTTGCCACTGCTGTACCTCCACCCGGACATACCTTTCTTGTTCATCCCCCGCCCCAAATGTTCACAG
Seq C2 exon
ATGCAAATCCTAGTAAGATGGGAGTACCTTATGTTTGTAAGTTGTCAAACTTCTAAGAGTCAATGTTGAGAAGCTCACAAGTTGTTATGAGTCTGTTGAGAGTGAAGACATTACACAAGTAAAGGAGAGTATCAATTGAGGGATCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000104900:ENSMUST00000200494:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
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:
GGGCAGCTTCATGGAAGTCAG
R:
TGTCTTCACTCTCAACAGACTCA
Band lengths:
301-510
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