GgaINT0032716 @ galGal3
Intron Retention
Gene
ENSGALG00000007906 | F1NJ22_CHICK
Description
NA
Coordinates
chr9:16710263-16710565:+
Coord C1 exon
chr9:16710263-16710402
Coord A exon
chr9:16710403-16710520
Coord C2 exon
chr9:16710521-16710565
Length
118 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CCCCCTTCCTTCCCTGTCAGAAT
3' ss Score
10.21
Exon sequences
Seq C1 exon
GCATAAGCTGCAGGAACCAGGAGGAGAAGCTGCTCCAGGACCTGATGACCAACTATAATCGTCACCTGCGCCCAGCGCTGCGTGGGGACCAGGTCATTGACGTCACCCTCAAACTCACCCTCACCAACCTCATCTCCTTG
Seq A exon
GTGAGACCCCCTTGCCACTATGGATTTGGGGTGCTGGGGTGATGCTGCAAGAGCTGGGTGGCCCCGGTGGGATGGGATGGTGGAGCTAAAGGTGCTTCCCCCCTTCCTTCCCTGTCAG
Seq C2 exon
AATGAGCGGGAGGAGACCCTCACCACCAATGTTTGGATCGAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007906:ENSGALT00000012833:2
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=PU(17.8=83.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATAAGCTGCAGGAACCAGGA
R:
ACATTGGTGGTGAGGGTCTCC
Band lengths:
171-289
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]