DreINT0170284 @ danRer10
Intron Retention
Gene
ENSDARG00000013082 | uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1, like 1 [Source:ZFIN;Acc:ZDB-GENE-040426-1056]
Coordinates
chr5:31211509-31212325:+
Coord C1 exon
chr5:31211509-31212013
Coord A exon
chr5:31212014-31212120
Coord C2 exon
chr5:31212121-31212325
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
TAAACAACTTGTATTTTCAGGGC
3' ss Score
7.85
Exon sequences
Seq C1 exon
AGGGGAGTTGCCGAATGACTTGAGTACACACTAAATACGCTTTTACAGTAGTTTTTTTTTTCTTATTTGCCCAGTTATATGTAACTCCGGCTATGTTTATTGTACCAACAACCGCACAGTGATCACGAGTTTCAGGCTGTTGAAAACAGGACCTGGATCAGCACTAATATCAGCTCGACTCCTATCACTACTGTGTTGAGCAGCTTCTAGCAGAGAAAGATGTCCTTTGAGGAAGCTAAAGCGAAATTAGAAGCAGCAGGACAGACTCATGTTTTACAGTTCTGGGATGAACTTTCTGCGGAAGAAAGGGGCACATTTCTGGAGGAAATTTTTCAGCTGCAGCCCGACGAGTTAGTCGAGCACTGCCGAGAAGCTGCAGCGTCCGCAAGCCGACAATCGAGTGCCGATGGTCGGCTTGACGCGCGGATGCAGCCCGTTCCTCCAGAGTTCATTGGGAGTGTGCGTAAAAGTGACAGAGAAACCCTTCAGAAGTGGGAGAATGAAG
Seq A exon
GTACAGCTCCAACTGTTTAATATTGTATACAATGATACATTTTTCTTTATTATTTCGTCACTGTGCTCAAAGTCTCATTAAAGTTATTAAACAACTTGTATTTTCAG
Seq C2 exon
GGCTACTGCAGATTTCACAGGACAGAGTGGCTGTTTTGCTGTTAGCTGGTGGTCAGGGGACTCGTCTTGGAGTATCTTATCCCAAGGGCATGTATAATGTTGGGCTTCCAAGTGGGAAAACCCTGTACCAAATTCAGGCAGAGAGGATCCAGAAAGTACAAGAGCTGGCCAATGTGAGGCATGGCAGTAGGTGCACAATACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013082:ENSDART00000023463:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.271 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=PU(12.5=53.1)
A:
NA
C2:
PF0170413=UDPGP=FE(16.6=100)
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:
GAGTTCATTGGGAGTGTGCGT
R:
TACTGCCATGCCTCACATTGG
Band lengths:
250-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]