DreINT0170286 @ danRer10
Intron Retention
Gene
ENSDARG00000013082 | uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1, like 1 [Source:ZFIN;Acc:ZDB-GENE-040426-1056]
Coordinates
chr5:31212663-31213252:+
Coord C1 exon
chr5:31212663-31212838
Coord A exon
chr5:31212839-31213079
Coord C2 exon
chr5:31213080-31213252
Length
241 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGA
5' ss Score
5.06
3' ss Seq
CATGTTTATGTCTTATTCAGATG
3' ss Score
9.44
Exon sequences
Seq C1 exon
GTTCATAATGACCAGTGAGTTCACCCTGGGACCCACAGAGAAGTTCTTCAAAGACAACAAATATTTTGGCCTTTGTCCATCCAATGTGGTCATGTTTGAACAGAGGATGATACCAGCTGTGGGCTTTGATGGAAAGATCATCCTGGAGAAGAAAAACAAAATAGCCATGGCTCCAG
Seq A exon
GTCTGACAGAGCTCATTTGGCTTTAGAAAGAATTTGAATTGATCAAATAATTTTATTGTTGATGTGTTAAGAGCAGATCATAAAATAATACAATCAACTAGAGCCTACCTTTCATAATTATTTGTTTTCATTCGTTACGTGTGAACAACGAAATATGGTCACATCAGTGTCTTTTTTTTTACTTAGTTTACTTTAGTTTAACTGACTGAAACCAGCATCTTCATGTTTATGTCTTATTCAG
Seq C2 exon
ATGGAAATGGCGGCCTCTATCGGTCACTGGTGGACAACAAGATTTTAGAGGACATGGAGAGAAGGAATGTGGAGTTTCTTCACGTGTACTGTGTGGACAACATCTTGGTGAAGATGGCAGACCCGGTTTTTATTGGCTTTTGTGTAACCAACGGAGCAGACTGTGGTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013082:ENSDART00000023463:3
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=0.000
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(14.4=100)
A:
NA
C2:
PF0170413=UDPGP=FE(13.9=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:
CCTGGGACCCACAGAGAAGTT
R:
TCCGTTGGTTACACAAAAGCCA
Band lengths:
307-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]