GgaINT0032796 @ galGal3
Intron Retention
Gene
ENSGALG00000007899 | F1NJ26_CHICK
Description
NA
Coordinates
chr9:16706021-16706623:+
Coord C1 exon
chr9:16706021-16706078
Coord A exon
chr9:16706079-16706477
Coord C2 exon
chr9:16706478-16706623
Length
399 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CCTGACCTTGAGCCCCCCAGGTG
3' ss Score
1.72
Exon sequences
Seq C1 exon
CACCGCATGGGGGACATGGCAGTGCTGCTGGCCTTGTTTGGGGCACTGGTGCTGTCGG
Seq A exon
GTGAGCGGAGCCATGGGGTTTGGGTGCTGGGGGTTCCTGGGTCACTGCAGTGAGGTTGGGGATGGGGTGGCGGTGTCTGTGTCCCAACTGAGCACATGTGTATCCCTATGTATCCTAATCCATGTCTATGTGTGCACTTATCTCCATGCCCAGTGCCATGGCTTCTGCACTGGCACCTTGTACTAGTTTGTCTCTTCATGGCTTTGTATCCATGTGTTTGTATATCCCTGTGTTCCGTGTCCATGCATGCCCATGTGTCCCCATATGCGTGCCATTCCTGTGCCCATACACCACATCTGGGTGCCCACCTCCCTGCTCTTGCATGGCATCGACACGCTGTGCACCCACACCCTCTGTCTGCCTCTGCCCACCCCTTCTGCCTGACCTTGAGCCCCCCAG
Seq C2 exon
GTGGGCTCTGCGTTAACCAGGAGGAGCGGCTCATCCATCACCTCTTTGAGGAGAGAGGCTACAACAAGGAGGTGCGCCCCGTTGCCTCTGCTGATGAGGTTGTGGATGTCTACCTAGCCCTTACCCTCTCCAACCTCATCTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007899:ENSGALT00000012824:1
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:
PF0293118=Neur_chan_LBD=PU(18.3=83.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGGGACATGGCAGTGC
R:
CAGTGAGATGAGGTTGGAGAGG
Band lengths:
198-597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]