MmuINT0168757 @ mm10
Intron Retention
Gene
ENSMUSG00000026956 | Uap1l1
Description
UDP-N-acteylglucosamine pyrophosphorylase 1-like 1 [Source:MGI Symbol;Acc:MGI:2443318]
Coordinates
chr2:25364881-25365682:-
Coord C1 exon
chr2:25365327-25365682
Coord A exon
chr2:25365086-25365326
Coord C2 exon
chr2:25364881-25365085
Length
241 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
ACGATGCACCTCTCCTCCAGGTT
3' ss Score
8.73
Exon sequences
Seq C1 exon
GGCCTGGTCTCGTGACATTGGTCAGAAAGTCACGAGTACAGGCTGAGGCGGCCGCTGCAGTTGCAGTATGGACTCGGAGAGGGATGTACGCGCACAGCTGCAGCGTGCGGGCCAGGACCATCTCCTGCGCTTCTATGCCGACCTGGCTCCGGAAGCCCGAGCCGCACTGCTAGCGGAGCTCGCCTCATTGGAGGCCGACGCGCTGCGTGAGCACTGCCAGCGCGCCGCAGCTGCGGGCGCGCTAGCTCCGGGTCCTCTGCCGGACCTGGCTGCGCGCCTGCAGCCCCTGCCCCCAGAACGCGTGGGCAGCGCGATCCGCTGTGACCAAGAGACACGCCTGCGGTGGGAAGAGGAAG
Seq A exon
GTAGGCAGCGCCGTGCCAGGCTGGGGTTGGGCAGGTCCGGCCCGTTGAGGCCGGAAGAGTTAGAGCCTATGGGCGGTGGGGGTAGTGGGGGCGGAGTGGAGGACACGGACTCGGGAAGTGCAGCGGAGAGTTATTTGCCTTGCAACTTCTTCCTCCTGTGCCTAGTAACCCCCGAAGTCGTGCTCACTTGTGGTTCTCCAAAGTGAAAGAGGCCTTATCTCACGATGCACCTCTCCTCCAG
Seq C2 exon
GTTTCCGACAGATTTCTCTGAACAAGGTAGCTGTCCTGCTGCTGGCGGGTGGGCAGGGCACTCGCCTGGGCGTCACATACCCAAAGGGCATGTATCAAGTTGGGCTGCCCAGCCAGAAGACCCTGTATCAACTGCAAGCAGAGCGGATCCGGCGTGTCCAACAGTTGGCTGACCAGCGACAGGGGACCCACTGCACTGTGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026956:ENSMUST00000102925:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.165 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=PU(6.9=27.8)
A:
NA
C2:
PF0170413=UDPGP=FE(17.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTCGCCTCATTGGAG
R:
GGGCAGCCCAACTTGATACAT
Band lengths:
292-533
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