GgaINT0022436 @ galGal3
Intron Retention
Gene
ENSGALG00000004476 | SEMA3G
Description
NA
Coordinates
chr12:2948741-2949200:-
Coord C1 exon
chr12:2949058-2949200
Coord A exon
chr12:2948856-2949057
Coord C2 exon
chr12:2948741-2948855
Length
202 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGA
5' ss Score
5.46
3' ss Seq
AGCACTCCCCATCCCTACAGAAT
3' ss Score
8.28
Exon sequences
Seq C1 exon
ACCCCAAATTCGTGGCTGCTTACATGATCCCAGACAACGATGATCGAGACGATGACAAAGCCTATTTCTTCTTCACGGAGAAGGTGGTGGAGGCAGACAGCAAGGAGCACACCATCGTCAGCCGGGTGGCACGGGTCTGCGTG
Seq A exon
GTGAGATGCTGGTGGCACCATGCTGGACATGGCAGGGCATAGAGATGTTCCCCTTGTGCCTACTCGGTGCCTGGTTTTGGGGACCTAAAGCCTGGGGTGGTTTCCTGTATCAGTGGCAAATTCCTGAGTTTTGGAGATGGTGAAGTCTCCCAAGCCTCCAGGGGTGCAGAGTGCTCAGTCACAGCACTCCCCATCCCTACAG
Seq C2 exon
AATGATGCTGGAGGCCAGAGGGTGCTGGTCAACAAGTGGAGCACCTTCAACAAAGCCCGCCTGGTGTGCTCTGTCCCGGGTCCTGGCGGCATTGATACCCATTTTGATGAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004476:ENSGALT00000007127:4
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:
PF0140314=Sema=FE(12.0=100)
A:
NA
C2:
PF0140314=Sema=FE(9.7=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:
CCCCAAATTCGTGGCTGCTTA
R:
GCTCATCAAAATGGGTATCAATGCC
Band lengths:
254-456
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]