GgaINT0032722 @ galGal3
Intron Retention
Gene
ENSGALG00000007906 | F1NJ22_CHICK
Description
NA
Coordinates
chr9:16712479-16713075:+
Coord C1 exon
chr9:16712479-16712682
Coord A exon
chr9:16712683-16712960
Coord C2 exon
chr9:16712961-16713075
Length
278 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
CTTATCCTTTGCTTTGTCAGCGG
3' ss Score
6.3
Exon sequences
Seq C1 exon
AGAATGGAGAATGGGCCATCAAGCACCGCCCTGCACGGAAGATCATCAATTCAGGGCGCTTCACCCCAGATGACATCCAGTACCAGCAGGTGATCTTCTACCTCATCATCCAACGCAAGCCGCTCTTCTACATCATCAACATCATCGTGCCCTGTGTTCTCATCTCCTCCATGGCTGTGCTGGTCTACTTTCTGCCTGCCAAAG
Seq A exon
GTACCCTAGCTGGTGGGCACAGGGGAGAAGTAATAGGAACGTGGGCTAGTGGGCATGGTGGTGATGGGTCAACAACTGAATTTAGTGGTCTTTGTGGTCTTTTCCAACCTTAATGATTCTATTATATTTGGGATTTGAGGTGGATTTCTGGGCACCTTAGAGTTAAAAGCTCTTGTAGAACTTGGATGGGTCAGCGCTGGGACATGGCAGCCCTTTTGGCAAAGCAGTGCCATGCCCACACCATTGTCCCCCACCAACCTTATCCTTTGCTTTGTCAG
Seq C2 exon
CGGGGGGGCAGAAGTGCACCGTCTCCATCAATGTCCTCCTGGCCCAGACTGTCTTCCTCTTCCTCATTGCCCAGAAGGTGCCCGAGACCTCCCAGGCAGTGCCACTCATTGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007906:ENSGALT00000012833:8
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=PD(18.3=58.0),PF0293211=Neur_chan_memb=PU(8.6=30.4)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(15.6=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:
ATGGAGAATGGGCCATCAAGC
R:
CACTGCCTGGGAGGTCTCG
Band lengths:
302-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]