GgaINT0138733 @ galGal3
Intron Retention
Gene
ENSGALG00000007004 | F1NGS5_CHICK
Description
NA
Coordinates
chr24:4492558-4493028:+
Coord C1 exon
chr24:4492558-4492727
Coord A exon
chr24:4492728-4492867
Coord C2 exon
chr24:4492868-4493028
Length
140 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGA
5' ss Score
3.45
3' ss Seq
GGTCCCCACCTCCCTTGCAGTCC
3' ss Score
8.1
Exon sequences
Seq C1 exon
CGTGGATGTTGGGAAGTCCCCCGATGTCCCCTACGTCTACGTTCGCCACCACGGAGAGGTCCAGAACCTCAAGCCCATCCAAGTGGTGACAGCCTGCAGCTTGGACATCTACAATTTCCCCTTCGACGTTCAGAACTGCTCGCTTACCTTCACCAGCTGGCTGCACAACA
Seq A exon
GTGAGAGAGCCGGGGGGGTCTCGGGGCCGGGATTGGGGCGGGCGGCGCCGTGCAGGGGACGCGTCCCCCTCTAGGTGGCCCCAGCGGCTCGGGAATGCCGTGCCCGGCTGCCTGCAGCTCGGTCCCCACCTCCCTTGCAG
Seq C2 exon
TCCACGACATCAACCTCTCGCTGTGGCGGCAGCCGGAGCTGGTGAAATTCGACAGGAGCGTCTTCATGAACCAGGGCGAGTGGGAGCTGCTGTACGTGCTCAGCCACTTCCAGGAGTTCAGCGTCAAAAGCAGCGACAGCTACGCCGAGATGAAGTTCTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007004:ENSGALT00000011338:4
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=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(27.3=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(25.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCAGAACCTCAAGCCCATC
R:
GCTGCTTTTGACGCTGAACTC
Band lengths:
246-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]