GgaINT0126703 @ galGal3
Intron Retention
Gene
ENSGALG00000008936 | F1NV60_CHICK
Description
NA
Coordinates
chr17:1320078-1320770:+
Coord C1 exon
chr17:1320078-1320237
Coord A exon
chr17:1320238-1320536
Coord C2 exon
chr17:1320537-1320770
Length
299 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGG
5' ss Score
8.17
3' ss Seq
TAATTCTCTGTGTGGGGCAGTAC
3' ss Score
3.52
Exon sequences
Seq C1 exon
GGAGCAGAACAGCACAAAAGCTGAGCAGGTCTTTGCTGAGGTCAGCAAGGCCATTCGTGAGTTCCCTGTGGACTTCCGCGGAGCTCAGATCCTCACCGGGAATGAGGAGGGCTCCTTCGGCTGGATCACCATCAACTACCTGCTGGAGACACTTATCAAG
Seq A exon
GTGCGGGGTGGTGAGAGGGCAGAGGAGCAGGAGGGTCTCGCTGCACTGGGAGATCTTGCTGCATTAGAGCCTCCCCATTGCTACTGGGCATTGAGGCTGGGACCCCGTGGGAGTCAGTCACTGCTTCATGGTGGAACAGGGAAACCTGGGGGCCTGGAGGAGCCCCAGAAGCAGTGGGGCCTGTGGATTGTAGGTCCCTCCTCTCTGCTGCACCACAGTTTGGTCAGGGAAGCCAGTAGCCCTGGGCTCACCCTGAATCAGGTCCATGCACCCTGTGAGTAATTCTCTGTGTGGGGCAG
Seq C2 exon
TACTCCTTCACAGGCAAGTGGACCCACCCACCAGTAGAGAACGTTGTCGGAGCTCTGGACCTTGGTGGGGCTTCAACCCAGATCACATTTCTTCCTGGGACCACAACTGATGACAAGAACACAACAAGAGCCCTCCTCAGACTGTATGGGACCGACTATTCAGTTTACACCCACAGCTACCTCTGCTATGGAGAAAAGGAAGTCCTGAAGAGGCTCTTGGCATCTTTACACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008936:ENSGALT00000014522:4
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=0.038
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=FE(12.3=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(17.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTGAGTTCCCTGTGGACTT
R:
TAGCAGAGGTAGCTGTGGGTG
Band lengths:
294-593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]