GgaINT0032720 @ galGal3
Intron Retention
Gene
ENSGALG00000007906 | F1NJ22_CHICK
Description
NA
Coordinates
chr9:16711182-16711775:+
Coord C1 exon
chr9:16711182-16711337
Coord A exon
chr9:16711338-16711677
Coord C2 exon
chr9:16711678-16711775
Length
340 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGC
5' ss Score
4.44
3' ss Seq
TCCCTCTGCCCCCCTCCCAGGTC
3' ss Score
10.27
Exon sequences
Seq C1 exon
CATCGATGGGACATTTGAGATCACACTCTATACCAACGTGCTAGTGTACCCTGATGGCAGCATCTACTGGCTGCCCCCCGCCATCTACCGCAGCTCCTGCTCCATCCACGTCACCTACTTCCCCTTTGACTGGCAGAACTGCACCATGGTCTTCCA
Seq A exon
GTGAGCACAGCTTGGGAGTGTTGGGGGTGGCCCCATAGGGACAGATGTGGGATGTCCCACTTTGCTCCAGGGTGGGCATCTTTCAGCGAGCCCCAGCATGGGCGAGCACCATTGACCTGGCACCTGGTTAACCATGGCTGACTAGATACATGTTTGTCCAGTTAAACTCCCATACAGCAGGGACACGGGTGACTAGCATGTCACAGTGTCACTCTCACAGAACAGCATAGAAGGGAATGGATCTCAAGGACTGTTGAGTTCTAACCCCCCTGCCACAGGCAGGGTTGCCAACCTCCCCTGCTATTTTCCCATTGGTGCCATCCCTCTGCCCCCCTCCCAG
Seq C2 exon
GTCCCAGACATACAGCGCGAACGAAATCAACCTGCTGCTGACAGTGGAGGAAGGCCAGACCATAGAGTGGATCTTCATTGACCCCGAAGCCTTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007906:ENSGALT00000012833:6
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(23.7=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(15.1=100)
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:
TGGGACATTTGAGATCACACTCT
R:
CTGTAAAGGCTTCGGGGTCAA
Band lengths:
248-588
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]