GgaINT0108165 @ galGal3
Intron Retention
Gene
ENSGALG00000023986 | F1P0H2_CHICK
Description
NA
Coordinates
chr1:106636-107028:-
Coord C1 exon
chr1:106910-107028
Coord A exon
chr1:106834-106909
Coord C2 exon
chr1:106636-106833
Length
76 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
TGACGTGTTTCTGCTTGCAGCAC
3' ss Score
9.81
Exon sequences
Seq C1 exon
GCGACGAAGCCGGGCGCGATGGGCTGCCGTGCGCCTCCGGGAGCGATGGTGCTGCTGCTGCCCCTCGCGGTGCTGCTGGCCGTCTGCCGGCCTGGGCACGGCTCCTCCGGCGCCTGCGA
Seq A exon
GTGAGTGGCCCCGGCGGTGCCCCGTGGGGAGGGACGGCGGTTCAGATGCAAAAATCTGACGTGTTTCTGCTTGCAG
Seq C2 exon
CACCTGCGGGCTCCGGCCCATGGCTTATCACTACGGGGGAACGCGTGTCGTGGGCGGCACGGACGCCCCGCAGGGGGCCTGGCCGTGGATTGTCAGCCTCCAAAGCACGTGGTATGTGGGCACGGGACACATCTGTGGAGGATCTCTCATCACCCCGCAGTGGGTCCTCACGGCAGCGCACTGCTTCGACCATGCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023986:ENSGALT00000040436:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(20.8=74.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGTGCTGCTGCTGCC
R:
GCTTTGGAGGCTGACAATCCA
Band lengths:
181-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]