GgaINT0022433 @ galGal3
Intron Retention
Gene
ENSGALG00000004476 | SEMA3G
Description
NA
Coordinates
chr12:2949522-2950010:-
Coord C1 exon
chr12:2949885-2950010
Coord A exon
chr12:2949619-2949884
Coord C2 exon
chr12:2949522-2949618
Length
266 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
ATGGTCCCACCTTCCCTCAGACC
3' ss Score
9.38
Exon sequences
Seq C1 exon
CCCCAGACCGACTGTGCCAACTACGTCCGCCTGCTGCAGCCCTACAACAGAACACACCTGCTGGCCTGCGGGACGGGTGCCTGCCACCCCGTCTGCACCTTCATCTACGTGGGGCACCGCGGTGAG
Seq A exon
GTAGGGACCTACCTGCTCATGGCAGCATCCCACGCCCATCCTCCTCCTTCCTGTGATGTGAGGCCACATGGGGATTCTGGACCTGTTGTTTGCCCTGGCCAGGAGCCAGGGATCTGCCACCCCCTGCCAAACCCAGTTGCTGCAGATGGGTTGCCCCAAAAAGCGTGGGCTCCAGGTCCCATAGGCAGGCTGGGGAGCCTGCAAGCCTGATGTGAACCCTACGCAGGCCTCCAGCATGCCCCCATTATGGTCCCACCTTCCCTCAG
Seq C2 exon
ACCCAGCATGCCTTCAGCTTGGACCCTGGTAGCACGGAGAGTGGTCGTGGCAGGTGCCCACATGAGCCTGACCGTGCATTTGCCAGCACCATCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004476:ENSGALT00000007127:1
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=0.545
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(10.4=97.6)
A:
NA
C2:
PF0140314=Sema=FE(8.1=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:
CAGACCGACTGTGCCAACTAC
R:
CGATGATGGTGCTGGCAAATG
Band lengths:
220-486
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]