MmuINT0168755 @ mm9
Intron Retention
Gene
ENSMUSG00000026670 | Uap1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 [Source:MGI Symbol;Acc:MGI:1334459]
Coordinates
chr1:172078127-172079590:-
Coord C1 exon
chr1:172079402-172079590
Coord A exon
chr1:172078175-172079401
Coord C2 exon
chr1:172078127-172078174
Length
1227 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
TATTTATTCCTACATAGCAGTGC
3' ss Score
1.78
Exon sequences
Seq C1 exon
GAAGTTTGTGGTGTATGAAGTATTACGGGAAGATGAGTTTTCCCCGCTCAAGAATGCAGACAGTCAGAACGGGAAGGACAACCCGACCACAGCAAGGCATGCTTTGATGTCCCTTCACCACTGCTGGGTCCTCAATGCCGGGGGACACTTCATAGATGAGAATGGCTCTCGCCTCCCAGCCATCCCCCG
Seq A exon
GTAAGTCACTGTCTTTGCTTTTGTGTGTGTGTGCTGCTTTCAGCTTCTTCCTTTTCTGTCTGATGTATCCCTAGATCTTGCTTATTTATTTTTAAAGTAGCTTTGTGTAAGTAGTTGCTGATGTAAAGTGACCGTAGCTTTGCCCATTACGAAGAGAATTCCAGCCTCAGTTCTCTTTAAGAGAAAGCTCTTGAAGAGCTCTTTTTGTTTTGGAACATCCTTATTGTGTCCATGAAATAATTTTTACTAATGGTCAGATGGGGTTATTTTAGTGTGTCATGTGACCAAAGCCATTAACAACACACTGTACTACAGGCGAGGTCCTTAAGCACAGAAATTGTTTCTGCTGTCATATGTCTATTTTCGAGGCCCACCAAGACCTTGCTTACCCACAGGCTGTGCCGTGCTCTCACCACGGCACTGGAGAGGGTGCCTTGAAGGAAAGTGAACACCAGTTACATTTGCTGATACTCAGACCTCACAAGTATTTTGGGTTTTAGATGATAAGACAAAAGGCACTTGGAGCTTTTCACGTTTCAGATAAAGCACTTTTAACCTAAGTCCTCTATCTTCTAATAACAGTTGCTGGCACCTGGAAATGTCCCTTTCAATATCTTTTGTGGTTTTGTACTTGGGTGAATTATTTTGCCGTTTAAGTTTGTTCTTTTTGTTTGTTTTGAGTTTTTTTTTTTTTTTTTTTCTTTTTGAGTCAAGTCTTCGCTATGTAGCCCTGGCTGTTCTGGAACTCATTCTGTAGGCCAGGCTGGCCTTGAACTCATAGAGATCCACCTGCCTCTGCTTCCAGAGTGCTGGGATTAAAGGAGTGCACCACCACTACCTGGCTTAATTTTTGTTCTTAAGAGATAAAATTCTGGCTGCATGCACCACAGTGCTAAACAGCCTCAAGCACTGGGCGGCTGGGCCGTGGAGTGCACTGTCCCCTGACCATGCTACCGGGAGTAACAGTGCTAGCTTGTCTTTCAGTCCAAGGCCAGTTAGGCAGGCTCTGCCTGCTCAGCAAGCTTGCTCTGTGACATGTCACACTATTCTCATGCTCATCTGCCATTGAGTTTGGTTTTTCTGATTTATATTTTTTTACTGCTTCTCATGCCAGGTTTATGAGTCACCACAAGGGCATGCCATTGGGTTAAGTATAGTTTGCAGCTCCACCTCGTTGTTATTATTTGTTTCCATTCCCATTAATGCTTATTTATTCCTACATAGCAG
Seq C2 exon
TGCTACAAATGGAAAGTCAGAGGCCATCACAGCTGATGTCAATCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026670-Uap1:NM_133806:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.281 A=NA C2=0.565
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(14.7=100)
A:
NA
C2:
PF0170413=UDPGP=FE(3.7=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:
TGTGGTGTATGAAGTATTACGGGA
R:
TGTGATTGACATCAGCTGTGA
Band lengths:
230-1457
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: