GgaINT0093396 @ galGal3
Intron Retention
Gene
ENSGALG00000013073 | UPP1
Description
NA
Coordinates
chr2:82225065-82225812:+
Coord C1 exon
chr2:82225065-82225182
Coord A exon
chr2:82225183-82225653
Coord C2 exon
chr2:82225654-82225812
Length
471 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTGAACACCATCTGCACCAGTTT
3' ss Score
1.02
Exon sequences
Seq C1 exon
AGAAAATTCTATCCATCTGTGCAACCCTCACCTGGAAAAAATGAAAGAAGACATCCTATACCATTTTGCTCTTGGGACCGGTACCCATGATTTTCCTGCACTGTTTGGAGATGTAAAG
Seq A exon
GTAAGATGCTGCATTTCATTTGGCAAGCTTAAAGCTTTTCTCCAGGAGGTAAAAGTAGAGCTGTCTTCTAAATAAGATTAAACAAGACAGCATATTGCCAATTGAGGGAGGAATGGAAAGGGGATAAGACCTGCAGGTTTTTTTCTCTATCCATATCAGTTATAATAGTTTCTGACTGTCTCTTTTCGTGAAGTAAAAAGACAAATACTGCAGTCTCTATTCAGATAGAGAAATACATTTTTGGGGCCTTGAAGTCAAAATCTGTATTTTACTAGTTCAATCGGGTTGAAGGCCTTTGAGTGCTGTACTGAATTTCTGGGGGGGTATACTTTTTCTTAATGGCCTTTTAGAATGACTGAGAGAAGAACCACGTCTGTGAGTAGCTTTGTGTTAAGGTGCTGGCATACTCTTGTTTACCTTTGCATGAATCATCCAATCAATTTTTGTTTTGTTGAACACCATCTGCACCAG
Seq C2 exon
TTTGTGTGTGTAGGAGGAAGTCCTTCACGGATGAAAGCTTTTATTGCCTACATAGCTGAAGAACTTGGACTTGGGAGCTCTGGTGGTGACTACCCCAACATCTGTGCGGGAACTGACCGTTACGCCATGTACAAAGTGGGACCCGTTCTGTCAGTCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013073:ENSGALT00000031003:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0104815=PNP_UDP_1=PU(0.1=0.0)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCTATCCATCTGTGCAACCCT
R:
TGACTGACAGAACGGGTCCC
Band lengths:
270-741
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]