RnoINT0158908 @ rn6
Intron Retention
Gene
ENSRNOG00000002926 | Uap1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 [Source:RGD Symbol;Acc:1561967]
Coordinates
chr13:88469795-88471546:-
Coord C1 exon
chr13:88471358-88471546
Coord A exon
chr13:88469843-88471357
Coord C2 exon
chr13:88469795-88469842
Length
1515 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
GAAGTTTGTGGTGTACGAAGTATTACGGGAAGACGAATTCTCCCCGCTCAAAAATGCAGACAGTCAGAATGGGAAGGACAACCCGACCACTGCAAGGCATGCCTTGATGTCCCTTCACCATTGCTGGGTCCTCAATGCTGGGGGACACTTCATAGATGAAAATGGCTCCCGCCTCCCAGCCATCCCCCG
Seq A exon
GTAAGTCACTGTCTTTGCTTCTGTGTATATGAGCTGCTTTGTGATTCTTCCTTTTCTGTCTGACGTATCCCTAGATCTTGCTTGTTTGTTTATTTTTTTTTTCTTTTTTTTTTCTTTTTTCTTTTTTTTTTTTTCGGGGCTGGGGATCGAACCCAGGACCTTGTGCTTCCTAGGCAAGTGCTCTACCACTGAGCCAAATCCCCAACCCCTTGTTTGTTTATTTTTAAAGTAGCTGTGTGTAACTAGTTACGGGTAGTTACTGATGTAAAGTGACTTTGGCTTTGCTCATTACAAAGAGAATGCCAGCCTTTTCTCTCTTTAAAAGAAAGCTCTTGAAGAGCTCTCTGTTTTTTTGTTTGTTTTGAAAGATCCTTACTGTGTCAGTGAAATGATTTCTACTAACTACTGGTCAGATGGTTTCAGTGTGTCATGTGACCAATGCTGTTAACAACACACTGTACTATATAGGCAAGGTCCTTAAACTCGGAACTTGTTTCTGCTGCCATATGTCTGTTTACAAGTCCCACCAAGACCTTCCTTACCTTCAGTCTATCTGTCCCCTGCTCGTACCATGGCACTAGAGAGGGTGCCTTGAAGGAAAGTGAACACCAGTTACATTCGCTGATATGCAGACCTCAGAAGGTTTTTTGGGTTTTATAGTTTTTTTTTTGTTTTGAATATTTATTATGTATACATCATACAGCTTTCAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGACAGCGCTCTTAACTGTTGAGGCATCTCTCCAGCCCCAGGTTTTTTGGGTTTTAGATGATAAGGAAAAAAAGAAAACACTTGGAGCTTTTCACATTTCAATAAGACACTTTTAACCTAAGTCTTTTATCTTATAGTACAAGTTGCTGGCACCTAGAAATGTCCCTTCCTAAACCTTTTATGGTTTGTACTTAGGTGAATTATTTTGCCTTTTTTTTTTTTTTTTTTTTTGGCTTTTATTTTTGAGTCAAGTCTTCTCTATGTATCCCTGGCAATCCTGGAACCCACTCTGTAGACCAGCCTGGCCTTGAACTCATAGAGAACCACCTGCCTCTGCTTCTAGAGTGCTGGGACTAAAGGAGTGCACCACCATCACCTGGCTTAGTTTTTGTTCTTAGGTAAGATTCTGGTTGCATGCACCAAAGTGCTAAAAAGCCTCACACACTGGGCCACTGGGCCATGGAGTGCGGTCTCCCACGACGGACTCTGCTGGGAGGAACAATGCTGGCTTGTCTTTAGTCCAAGGCCACTTAGGCAGGCTCTGCCTTCACAAGCTTGCTCTGTGACGTGTCACACTATCCTCATGCTCATCTTCGACTGAGTTTGGCTTTTTGATTTATTATTATTATTTTTTATTGTTTATTGGTTGAGTATGTTTTGCAGCTCCACGTCATTGTTCTTATTTTCTCCATTCCCATTAATGCTTATTTATTCCTACATAGCAG
Seq C2 exon
TGCTACAAATGGAAAGTCAGAGACCATCACAGCTGATGTCAATCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002926:ENSRNOT00000058560:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.765
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
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGAAGTATTACGGGAAGACGA
R:
TGTGATTGACATCAGCTGTGA
Band lengths:
222-1737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]