GgaINT0078384 @ galGal3
Intron Retention
Gene
ENSGALG00000004293 | F1NWX6_CHICK
Description
NA
Coordinates
chr3:47272378-47272724:+
Coord C1 exon
chr3:47272378-47272498
Coord A exon
chr3:47272499-47272605
Coord C2 exon
chr3:47272606-47272724
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
GATCTATTTCTCCTGCTCAGTTT
3' ss Score
6.82
Exon sequences
Seq C1 exon
TGGAGTGCATGCACTGCAGTGGAGAAAACTACCATGGAGTAGTTGCAACAACAGCATCTGGGCTTGAGTGCCAACGCTGGGACTCCCAGCTACCTCACTCTCATGGATACCTCCCTGAAAA
Seq A exon
GTGAGTTGTTTGTCACCATGGTGGCCCACAGACCACTTTATCCCAGACAGACTAATTGTCATAGCCAGCCATTAGTGACTTGTTTAAGATCTATTTCTCCTGCTCAG
Seq C2 exon
TTTTCCAGAGAAGGATCTGAAGATGAATTATTGTCGTAACCCTGATGGTGAACCTCGGCCCTGGTGTTTCACTACAAACCCGAATAAACGCTGGGAATTTTGTGACATTCCTCGTTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004293:ENSGALT00000006829:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(48.7=92.7)
A:
NA
C2:
PF0005113=Kringle=PD(50.0=95.1)
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:
TGCACTGCAGTGGAGAAAACT
R:
TGCAACGAGGAATGTCACAAA
Band lengths:
231-338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]