GgaINT0126376 @ galGal3
Intron Retention
Gene
ENSGALG00000001565 | C5
Description
NA
Coordinates
chr17:9031539-9032001:-
Coord C1 exon
chr17:9031912-9032001
Coord A exon
chr17:9031752-9031911
Coord C2 exon
chr17:9031539-9031751
Length
160 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TGTTATTATTCTTTCCACAGGAC
3' ss Score
11.31
Exon sequences
Seq C1 exon
GTTCAATCAAGAGACGACAGGAATTTCGTTATAAGATTCCACTAAACCTGGTCCCCAAAACAAAAATTGATAGAAGTGTCAGTGTAAAAG
Seq A exon
GTAAATTGTAGTTAAGCTTTTGGTCTACCATTAATCCATGTTTAAATTTGTCTGCATTTATTCTTAGATATTTTTTTTTACCTTTCTAGGAAAGGATTTGCAGATCACCTCATAAAGAATGATTGCTTATAAGTCAGTCTTGTTATTATTCTTTCCACAG
Seq C2 exon
GACATCTTATGGGTGAAGTAATTGCCACAATCCTCAGTCCTGAAGGTCTTAGTATTCTTACGAATCTGCCGAAGGGCAGTGCAGAGGCAGAGCTCATGACTATTGCCCCAGTATTTTATGTGTTTCACTACTTGGAAGCATCGAACAACTGGCATATACTGGGTCCTGAAACCTTAACTTCAAGAACTGCAATGAGAAGGAAGATGAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001565:ENSGALT00000002379:24
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF076789=A2M_comp=PU(0.4=1.4)
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:
GTTCAATCAAGAGACGACAGGA
R:
GCCAGTTGTTCGATGCTTCCA
Band lengths:
243-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]