DreINT0170280 @ danRer10
Intron Retention
Gene
ENSDARG00000052170 | uap1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 [Source:ZFIN;Acc:ZDB-GENE-030131-1233]
Coordinates
chr6:35058133-35058886:-
Coord C1 exon
chr6:35058693-35058886
Coord A exon
chr6:35058274-35058692
Coord C2 exon
chr6:35058133-35058273
Length
419 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAGT
5' ss Score
7.15
3' ss Seq
CCTCTATATCTTTCTTTTAGGAC
3' ss Score
11.73
Exon sequences
Seq C1 exon
GTTGTGGAGAAGACCAATCCCACAGAAGCAGTGGGTGTGGTCTGTAAGGTGGACGGCCGTTATCAAGTTGTAGAGTATAGTGAGATTACCCTGGCAACGGCGGAGAAGAGAAGCACTGACGGTCGACTGATGTTCAATGCCGGCAACATTGCCAATCACTTCTTCACCCTCACTTTCCTCAGAGAGATTGTGAG
Seq A exon
GTTAGTCAGTGCTCAGAGAAATGATTAATTCATATTTTTTTATTCATTTTTAAAGTCAGTTTTTGATTGTTTATCTATGAATCAAAGCATTTGGAGCTGGTTGAGGATATTTAGTTGCTAGGCAATGATCTCGGAAACACATTAAACAGTGCAGCTATTTCTATGAGCTATTTCCAATGAGGTTTGCCATCTTGTAAATACTAGACAGGATGGAGCTGACTTTAATGCGCACTGAGAATGAGGTAAATTCAGGAGAGGAACATCTGCAGTTTTTGAGCGTCTGGTATTTTAAACTCAGATGACTTTGCCAGACGTGTTCTCTTATTGTCATTTTTATGACATTTTAACTGAAAGAACATGCTTGGCTTTTTCTGTTCTGTTACTGTCTGTCTTTATATACCTCTATATCTTTCTTTTAG
Seq C2 exon
GACTCACGAGCCGCAGTTGCAACACCATGTGGCACAGAAGAAAATCCCCTACGTGAACACTGAAGGACAGCTAATCAAACCTGACAAACCCAATGGGATTAAAATGGAAAAGTTTGTCTTCGACATATTCCAGTTTGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052170:ENSDART00000073970:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(15.0=100)
A:
NA
C2:
PF0170413=UDPGP=FE(11.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTGGAGAAGACCAATCCCA
R:
TGGCAAACTGGAATATGTCGA
Band lengths:
334-753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]