GgaINT0138216 @ galGal3
Intron Retention
Gene
ENSGALG00000007340 | F1NC10_CHICK
Description
NA
Coordinates
chr24:5616434-5616812:-
Coord C1 exon
chr24:5616670-5616812
Coord A exon
chr24:5616587-5616669
Coord C2 exon
chr24:5616434-5616586
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
CTATCCCTGCTGTGCTGCAGGGT
3' ss Score
7.48
Exon sequences
Seq C1 exon
CACAGCTCACCGAGACGCTGAAGGAAGCCCTCGTGCCGTTGATCAGCACCCAGAGGTGCAACAGCTCGTGCATGTACGCGGGAGAGCTCACGGGCAGGATGCTGTGCGCCGGGTACCCGCAGGGGAAGATCGATGCCTGCCAG
Seq A exon
GTGATGGGCGGCTGCGGGCAGGCGCAGAGCGGAGCGGCTCTGAGGCTCAATGCTGCCGTGCTCCTATCCCTGCTGTGCTGCAG
Seq C2 exon
GGTGACAGCGGGGGCCCCCTGGTCTGCCAGGATGAGCTGGCGTGGCGCTTGGTGGGCATCGTCAGCTGGGGCCGGGGCTGCGCCGAACCAAACCGCCCGGGGGTTTACACCAACGTGGCTCAGCTTCTGCCCTGGATTTATCACATCACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:9
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:
PF0008921=Trypsin=FE(25.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGCTCACGGGCAGGATG
R:
TGAGCCACGTTGGTGTAAACC
Band lengths:
183-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]