MmuINT0168764 @ mm10
Intron Retention
Gene
ENSMUSG00000026956 | Uap1l1
Description
UDP-N-acteylglucosamine pyrophosphorylase 1-like 1 [Source:MGI Symbol;Acc:MGI:2443318]
Coordinates
chr2:25359889-25362137:-
Coord C1 exon
chr2:25362071-25362137
Coord A exon
chr2:25361740-25362070
Coord C2 exon
chr2:25359889-25361739
Length
331 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTGTCACCCCTTGTTTATAGGGG
3' ss Score
7.3
Exon sequences
Seq C1 exon
CATGCTCCCAAATGGAGACCCTCCAGCCATCTGTGAGATCTCGCCCTTGGTGTCTTACTCTGGAGAG
Seq A exon
GTGAGCGTGTAGTTCCTGTCCAGGATTTCATGACGTCTGGTTTGTGTGTGTACTGGGGTAGCAGGTTACAGGCCTGCTTCAGTTGGCCAGTGAAGTGTGAACTTTGCGGATGTCGTGAACTGAGAGGTCTGGAGGCCTTTGCCAGTCTTAGAGGGTGTGGGGTACAGGAAAGAATCAAGGCTGAGACCAAGACTTTAGGGAGTCTTCCTGAGGGAGACACTAGCCCTGTGCTGTCCTTTCCTGACAGGGCAACACTGGAATGCTGTTTCAGGGTGGCTAGAGGGGGTATGGGCAAAGTGGACACTTAACCACTGTCACCCCTTGTTTATAG
Seq C2 exon
GGGTTGGAAATGTACCTGCAAGGCCGACAACTCCAGTCTCCATTCATTCTGGATGAGGACCAAGCCAGGCTGCTGCGGCCACAGGACTGCTAACCTGCCAGCTCCCAGGGTTTTTGGCCATGGGGTTCTATAGGGTGGCGATGCGGTTCTGGACAAGGGTTTGAGTGGCCATGCTAGCCTTCAGGACACTGAAGCAAGTGTGCTAGTTGCTCTGAAAGATTGGGACCTCTTGGATCCCCCCCCCCATGGACTCTGATTGTCTGTCTATTTTTTTGTTTTGTTTTTGCCTTCTTGCTGGCTCTGGGGCTGAGCTGAGAACGTTGGAAAATGGGGCTAAAAGAGACTTCTGGGTAGAGGGAGGGAGGTGATGTCTAAGAAGGCAGCACAGGAGATGCCCTTTAGCATCTGTCCTCCCAGCACACAGGCCAGCCACATGTTCAACTGACCGTGAGCTGTGCCTTATGGAGATGTAGTTAAAAGACCTACCCCTAGGTAGCAGAACCATAACTGAAGTAAGGCTGAGCATGCCACCCCACGTGCCAGACAGGACCAGTAGTTGAAGTCTGATGCCAATGATTAAGAATCGGTTGGAGAACTCCGATTGGCATAGCTGAGACAAAAGGTGAAGTCTCCCTGCCTTCCCTAGACCTCGCCCACGGCCTGAGTCTCCCAGTCACACCTGCAAGTGGGCCTGGCTGCTGTGTCCTGAGTAACTTCCTCCCAGAATGAGAGATCACACTGGTTGCCTTCTGCAACTCATTTTGACCCAGTCAGAAACATCTTGGTCGTCTGCTTTTCCCAGCTTAGAGCAGATGCTCTGGGATGGAGATGTAGCTTCTGTGTGAAACTTGGCTCTGCTGCCCAGCCTTGTCCTGTCACTGACACAGCCGACAGCTGTTGATCCACAGCTGTTTTCCCATGATACTGGCCCTTCCCCTGTAATGTAGTAGTGGTCAGGACAGGCAACCTACTCTGCAACCACCTACCCCCAGATATATGGGCCCCTGCTCATTCCCATTGACTTTCCCAGAGGAGGTCAGTGGAAGCAGTGGACACAGGTCTGGGGAAGATGGGGGAGCAGGTCTACAGCTGCCATTGTTAGGCCAGTATGTAGAAGTCCAGCTGAGCAGAAAAGCAACCATAGAACTTAGAGCAGGGGTGGACAGTTAGAAAGGAGGACAGGACCCAATACCACTTCTAAATCTTTAGGGGGTCATATGATAACCAGATGGTAAGTATCAGTCAAGACAATTATGACAGTAGTGATCTCTGGATCTACTCAAGTGCAGAAGCTGGTGACACTATTTGGAAACATGACAGTGTGTGATAGTGCAAGCCCTGGTGTAACACTGGACTGTATAAACCATAAACGTTTTAGAGGACTTCACAGTGGAGCAGAGTGAGAACAAGTAGAGCCATGAAAAGATCCTATCTACACTTCAGGAAGTTGTGTTACCCGCTGGCAAACACTGCATACAGTGGTCATGATTAGCAAGCAAACCCACGAGTGCCCAGTCTTGCCTATATTCCCAGCACTTGGAAGAGGCAAGAGGACTGTGAATCAAGTATATTTTGTTGTTTGAGGCAGGCTCTCTGTCTGTAGCCCTGGCTGGCCTGAGACTTACTGTGTAGGCCAGGCTGGCTGTAAACTCACACAGAGTCAACTGCCTCACCTGAGTGCTGGGATGAAAGGGCACATTACCACACTTGGCTCTTCACATTTATTTGAGAAATACCTTTGACCAATTTATGGGTCATGAAAGCATACAGAGTTTCTATCTCGCAAGAGACCTAGTACAGCTAGTGATGTAACGCCTTTGCTTCCCTAGATAAAATTGAGTCCCAAAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026956:ENSMUST00000102925:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=PD(0.8=13.0)
A:
NA
C2:
NO
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:
TCGCCCTTGGTGTCTTACTCT
R:
TTCCAACGTTCTCAGCTCAGC
Band lengths:
353-684
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