DreINT0170285 @ danRer10
Intron Retention
Gene
ENSDARG00000013082 | uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1, like 1 [Source:ZFIN;Acc:ZDB-GENE-040426-1056]
Coordinates
chr5:31212121-31212838:+
Coord C1 exon
chr5:31212121-31212325
Coord A exon
chr5:31212326-31212662
Coord C2 exon
chr5:31212663-31212838
Length
337 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGG
5' ss Score
6.63
3' ss Seq
TTTTAATAATGTATGAACAGGTT
3' ss Score
5.03
Exon sequences
Seq C1 exon
GGCTACTGCAGATTTCACAGGACAGAGTGGCTGTTTTGCTGTTAGCTGGTGGTCAGGGGACTCGTCTTGGAGTATCTTATCCCAAGGGCATGTATAATGTTGGGCTTCCAAGTGGGAAAACCCTGTACCAAATTCAGGCAGAGAGGATCCAGAAAGTACAAGAGCTGGCCAATGTGAGGCATGGCAGTAGGTGCACAATACCATG
Seq A exon
GTATGGTTCTTTTAATTTCAGCTTTAAGCACCATTTGGTCTTGTGGAAGTTTTTTTTTTTTTTTTTTGGACCTGCAAATTCTGAAGTGGAAATGTCCTCTGAAACAAAATGTCAACACGATAAATGGATAATTGTGAAGTAATTTGTTACTTTTAGTAGGCCTAAATGTTTAGCTTGATTAATGCAATGACTTGTTTGACGTTTGAAAACTGGCTCTGGAAAATCACACATCTGTCAGTAGTAATAAAAATGAACTGGTGGTTTATGAAACTTGCCAAACAAACAAGCAAATGACTTAAAACTTGTACTGACTTGTCTTTTAATAATGTATGAACAG
Seq C2 exon
GTTCATAATGACCAGTGAGTTCACCCTGGGACCCACAGAGAAGTTCTTCAAAGACAACAAATATTTTGGCCTTTGTCCATCCAATGTGGTCATGTTTGAACAGAGGATGATACCAGCTGTGGGCTTTGATGGAAAGATCATCCTGGAGAAGAAAAACAAAATAGCCATGGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013082:ENSDART00000023463:2
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(16.6=100)
A:
NA
C2:
PF0170413=UDPGP=FE(14.4=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:
GGCTACTGCAGATTTCACAGGA
R:
TCTTTCCATCAAAGCCCACAGC
Band lengths:
342-679
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]