GgaINT0142522 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NK40]
Coordinates
chr27:1688966-1689477:+
Coord C1 exon
chr27:1688966-1689137
Coord A exon
chr27:1689138-1689251
Coord C2 exon
chr27:1689252-1689477
Length
114 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CTGGATGCTCTGTCCTGCAGAGA
3' ss Score
7.88
Exon sequences
Seq C1 exon
GCCCAGCCAGGTCCCATGCCAGAGAAGATACAATGGATATGGTCATGGTGGAAAGCGGGTTAGAAATGCCCATGTTAGCTAGTGTGCCAGGTGCTCCCAGCAACGAGGAAGAGCCACCAGCTCCCCGGACTCATTTCCCAGAGACATGGCTGTGGGACCTGGTGCCCGTGGG
Seq A exon
GTGAGTGGGAATGGGGACAGTCCCCAGGATGGCTCCTTCTCCTCAATGGAGAGAACCAGCCCAGATACCACCAGTGGGTGACACGTGGCAGCCTCTGGATGCTCTGTCCTGCAG
Seq C2 exon
AGAGGAGGGTTCTGCAGAAATGGTGGTGACGGTGCCCGATGCCATCACAGAATGGAAAGCTGAGATGTTCTGCACAGCACCCGTGGGCTTGGGGCTAGCCCCTGCCACCACCCTCACAGTCTTCAAGCCCTTCTTCGTGGACCTGGCGCTGCCCTATGCTGTGATCCGTGGTGAAGCCTTCTCTCTTGTTGCCACCGTCTTCAATTATCTGCGGCAGTGCCTACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000293:ENSGALT00000000384:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=PU(10.0=15.5)
A:
NA
C2:
PF0020717=A2M=FE(83.3=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:
AGCGGGTTAGAAATGCCCATG
R:
GCTTGAAGACTGTGAGGGTGG
Band lengths:
247-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]