MmuINT1014291 @ mm10
Intron Retention
Gene
ENSMUSG00000090038 | Gm16573
Description
predicted gene 16573 [Source:MGI Symbol;Acc:MGI:4414993]
Coordinates
chr14:56611148-56611739:-
Coord C1 exon
chr14:56611673-56611739
Coord A exon
chr14:56611338-56611672
Coord C2 exon
chr14:56611148-56611337
Length
335 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
GTCCCCACTCTCTCTTGCAGACC
3' ss Score
11.36
Exon sequences
Seq C1 exon
GTTTCTGAAAGACCTTACAGGGATGCCTTCTGTGTTACGGCTTGGTGAAAGGTGGACATACTGATAG
Seq A exon
GTGAGATTAGTTCTGGGAATGTTGGGAGCCAACTCCTGGCAGAAAGCAGTTATCAGCTCTGCAGCCATCTCGGGCTATTTACTCACAGGTGGTACTTTTTCACCCTGATGAGAGACTTGTTTTCCTAGCATGATGTATTTGCAAGAAGCCCACCTCAGCTGAACACACTGATAACATCTTGGTTTTCTCCTATCAATCCTGGACCTGTGGTTAAGTGTCTCCAGCTGCACTCCTCAGCGAGTGCACATATACCTTTAGTTGCCTTTCAATAAACGAGACTTATTTGTTTCCACTCTTCGTGTCTCTTGCCCCTCAGTCCCCACTCTCTCTTGCAG
Seq C2 exon
ACCCTGTTGACTGACCTGAGGACCGGGCCATGACTGGAGCATGGGAAAAAGACATTTTACAGAGGGATACTGTCTACTCCCAATGTGTGTGTTCTCTTATCAGTCTGGCAGTCGAGTGCCTGGTGGCAGTACCAGTTCTTCTGCTTCACACAACAGCGACTTCATTTCCTCCTTTAGACAACGCACGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000090038:ENSMUST00000160334:3
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
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
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:
TCTGAAAGACCTTACAGGGATGC
R:
CCACGTGCGTTGTCTAAAGGA
Band lengths:
254-589
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