DreINT0170282 @ danRer10
Intron Retention
Gene
ENSDARG00000052170 | uap1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 [Source:ZFIN;Acc:ZDB-GENE-030131-1233]
Coordinates
chr6:35055410-35056658:-
Coord C1 exon
chr6:35056470-35056658
Coord A exon
chr6:35055477-35056469
Coord C2 exon
chr6:35055410-35055476
Length
993 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AACCTTTTTTGCCATCACAGTCT
3' ss Score
5.11
Exon sequences
Seq C1 exon
AAAATTTGTGGTTTATGAAGTTCTGAGAGAAGACGAGTTTTCTCCACTGAAGAATGCAGACAGTCAGGATGGGAAGGACAATCCCACTACAGCCCGTCATGCTCTCATGTCTCTGCATCACCGCTGGATCCTAAATGCTGGAGGACATTTTGTAGATGAGAACGGGACCCACATACCTGCTATACCCAG
Seq A exon
GTGAGACTTTATTTTCTCACCATGTTGATTTTACAATCCCACACAGTATGGTGTCATTTCTTTTCCTTAACACACAAACTAAAAATGTATTAAATATTGTCACTGATGTATAAATTTACCTTTTGGTTAGTTTTTTTAATACTTTAATTTCATATATTTGTTTTTAGACTGTTTTTTTTTTTGTTTTAGTTTTTATGTGTTTTACTACACACATTTTTTGAAAAAACATGAAGATGAGCACATTCTAACCGAATAATCTTTTTTTTTTGGCTGAAAATGTTTTAGCCAAGAGTGTGTGCGCTCTTTATTTGTTGCTTACATTCCCACCTGAGTTGATTTTCACTCCCCTTTACCTTCAGTTTAAGTGTAACCACACAATATGTCCTGTGTAACATTTCTAGAGCTGGACCAGCAGGGACAGTGACTCCTGAAGTCAGCCAGAAGTAACTATTCTTACTGTCGTACATATAGTGCATGGTGATGGGGCTTCGCTCTTATTAGATCCCGTCTGTTAGAGCTCAGTGGGGGAAGAAGGTGTCCAATCCCAGACATGACATAGCAGTGGTAAAAAAAAAACTGGCATTTCTTAACCGGCTCCGACCCAAGAAAGCAGCTACTAACGGGCAGAATAATGTGCATGCTGGGAAATGGGCATCAGGCATGCTGAACTGAACAAGGCTGCTCCTCAGTATAACAAATAATCTGGTTTAGGTGCTTACAATCAAGTTTTGCTTTACTTAAAGTGGCAGAACATCATACTTTGTTCATGAAATGTTTAATACTGTACAAGTGATTGTGGTGGTCTGATTCTGTTTCTAATGGGTAAATCATATGTATATTATGATTATTGAAGAAAATCCTTTGTGAATCTAACCTTTTCAAGATTTTAGTAATGTTGTGTAAAATCTTTTCATTGTTTAATGTATATAAAATGATTAATGCTTGGTCTGCATGGCCATTCAAACACAATTCTAACCTTTTTTGCCATCACAG
Seq C2 exon
TCTGAAGGATGGAACAGATCTGCCAATCAAATGTGAGATCTCTCCTCTTGTGTCCTATGGTGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052170:ENSDART00000073970:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.351 A=NA C2=0.029
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(14.7=100)
A:
NA
C2:
PF0170413=UDPGP=PD(4.4=82.6)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTTGTGGTTTATGAAGTTCTGAGA
R:
CTCACCACCATAGGACACAAGA
Band lengths:
254-1247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]