DreINT0170290 @ danRer10
Intron Retention
Gene
ENSDARG00000013082 | uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1, like 1 [Source:ZFIN;Acc:ZDB-GENE-040426-1056]
Coordinates
chr5:31215108-31216683:+
Coord C1 exon
chr5:31215108-31215293
Coord A exon
chr5:31215294-31216616
Coord C2 exon
chr5:31216617-31216683
Length
1323 bp
Sequences
Splice sites
5' ss Seq
TAGGTGATA
5' ss Score
2.23
3' ss Seq
GTCTCTGCTTTCTTTTGCAGTAC
3' ss Score
10.84
Exon sequences
Seq C1 exon
GAAATTTGTCGCATTTGAGGTGTTGAGGGAAGAGGAATTTTCACCCCTGAAAAATGCTGATGGGGCACCTCTGGACACACCAACCACAGCACGCCGATCTTTGCTAGCACAACATTACCGCTGGATTCTGGCAGCCGGTGGAAGCTTCCTTGATGAGCAAAATAAGCCCTTCACACCAAAACATAG
Seq A exon
GTGATAACACTAAATACCCTTTAGTAAATCCACATCAAATAAGGATTGTTGGACAGCATCCTCAATGTCTCAGAGGGATAGTTAATCAAAAACTGAAAATTTCCTAATCATTTACTCACACTCAAGTGCTTCCAAACCTTTATGAATTTTTAGAAACAAAACATAGGCCTACTATGGAAGTCAGTGACTTCAGAAACAACATTCTTAAGGATATCTTGTGTTCAAGATATGAAATAAACTTAAACAGGTTTAAAACAAGTGGAGTAGTTCATTTTTAGGTGAACTATCCCTTTAAAGAGTCCTTTACGATCGTGTTCCATTTTCTTTGAGTAACTGATCATGTTTGTGACTTTAACTAATGGTAAAACTGAAACCATTATAAAATGTTTACATTTGCTTCAAAAAAACAGAAAACTGAAACTTACAGTTATGGTAAGGATATTACATTTCGGACATGCTTCAGGTTATATCTGCGTTAAAAAATCATGTGTTCCTTTACATTAGCGAGACAGGACTGATGGGCTTTATTCTGGTTAAACAACTGGCTAGATATACATTATTCCACTTATTACACAGATATTTGCCTCAAAATGAAATAATTAGACACTAAACACTGATCTGAGCTGTAATCATTTACTTACTCTTTAATTTAATGTAAAGTTCGCCGAAATGATGACTAGTTGCAGCTTGCGCTAAACAACTTGTATAATTATTCAGCCACAAGATGGCGCCAAACAGTCAAGATCAGCGGCGTGACAGATAAGCACAAAACTGTCGATTGAATAATATACTTGGGATAAGATGATTCGTGTTCGTATTTCATTCTTTGGAATGTCGTGATTGATTACTCAGAAATCAGGTAAACATGAATTTACATGCAGACGGCTATTATTATTGAGTAAACCTGAAGTAAACAAGTCCATGAGGAAAGAAGCTGCAAACAAGCAAGCTATGTACCCACATGCCATGGAAATAGAGCACGTCAACATATCCTACTGCTATCAGTAAACAAATATTGACTGTTTAGAATAGCGTCAAATGACCTTTACTGCAAATATGATGTTTTCTCTCATATTTTAATTTGTTTTATAATTCTAAACAAACCAGTTGTAGAAAAGGATGTGCTGTAGACATTTCCTAAAATCAACTCTATTCCCCTTATGAATTGAGTTCCCTCCATCTGACTTAACCTGAAAGAAAAATGCCTAAAAGGGATGTCTTGCCCGTCGATGCAGAAAATGAACTATTTTAAGTCAGTTTCTTAAATGGACAGCAGGGTGAGTGTTTTATAATGACTGACTTTGTCTCTGCTTTCTTTTGCAG
Seq C2 exon
TACTGCGCAGAATGAAGACCCACCAGCTGTCTGTGAAATCTCTCCACTCGTATCATACTTTGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013082:ENSDART00000023463:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.302 A=NA C2=0.391
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=PD(14.9=96.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCGCATTTGAGGTGTTGAGG
R:
TCGCCAAAGTATGATACGAGTGG
Band lengths:
246-1569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]