DreINT0170289 @ danRer10
Intron Retention
Gene
ENSDARG00000013082 | uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1, like 1 [Source:ZFIN;Acc:ZDB-GENE-040426-1056]
Coordinates
chr5:31214887-31215293:+
Coord C1 exon
chr5:31214887-31215027
Coord A exon
chr5:31215028-31215107
Coord C2 exon
chr5:31215108-31215293
Length
80 bp
Sequences
Splice sites
5' ss Seq
AAAGTGTGT
5' ss Score
2.99
3' ss Seq
ATTTGTTTTGTCTTTGCAAGGAA
3' ss Score
6.87
Exon sequences
Seq C1 exon
AAAGTTTGAGAGTAAGCTGAAGCAGCATGTGGCAATCAAGAAAGTGCCGTTTGTGGATGGAGAAGGAAACCTGGTGAAACCAACAAAGCCCAATGGCATCAAAATGGAGAAATTTGTATTTGACGTCTTTCAGTTCTCAAA
Seq A exon
GTGTGTTTGCAGCTATTCTTAATTTGGGCAAAATCAGGTATCACCCTCTTCTTCACTGTAATTTGTTTTGTCTTTGCAAG
Seq C2 exon
GAAATTTGTCGCATTTGAGGTGTTGAGGGAAGAGGAATTTTCACCCCTGAAAAATGCTGATGGGGCACCTCTGGACACACCAACCACAGCACGCCGATCTTTGCTAGCACAACATTACCGCTGGATTCTGGCAGCCGGTGGAAGCTTCCTTGATGAGCAAAATAAGCCCTTCACACCAAAACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013082:ENSDART00000023463:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.302
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(11.5=100)
A:
NA
C2:
PF0170413=UDPGP=PD(14.9=96.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCAATCAAGAAAGTGCCGT
R:
AGGTGCCCCATCAGCATTTTT
Band lengths:
182-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]