GgaINT0022439 @ galGal3
Intron Retention
Gene
ENSGALG00000004476 | SEMA3G
Description
NA
Coordinates
chr12:2947919-2948471:-
Coord C1 exon
chr12:2948327-2948471
Coord A exon
chr12:2948151-2948326
Coord C2 exon
chr12:2947919-2948150
Length
176 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
GGTCTTTCCTGTCCCTGCAGTGT
3' ss Score
9.28
Exon sequences
Seq C1 exon
CCATGTCTTTCAGGGCTCCGCCGTCTGTGTCTACCGCATGGCCGACATCCGTGAAGTCTTCAACGGGCCCTTTGCCCACCGGGACAGCCCCCTCCACCAGTGGGGAGCCTACGAGGGCCGTGTGCCCTACCCGCGCCCGGGCGTG
Seq A exon
GTGAGCAGTTCCCACATCCCCATGGGGGGTGATGGGACCAATCCCAGTGGGGTCTCTATCCCCAGAGTGGCTAAGGTGGAGATGATGCCAAAGTGGAAGATGGGGAGGGACCTAAATTGGCTCTGACGAGGGGCTGGGTGTGCTAGCGCCAAGCAGGGTCTTTCCTGTCCCTGCAG
Seq C2 exon
TGTCCCAGCAAGACCACCAACCAGCCCCGGAGGCCATACAGCAGCACCAAGGAGCTGCCTGACGAGGTGCTGCACTTTGCCCGCGCTCACCCCCTCATGTACAGGGCTGTGCGCCCACGGCATCACCGCCCGCTGCTGGTGAAGACTGACCTGCAGCAGCGCCTGCTCCAGCTTGTGGTGGACCGTGTAGATACTGAGGATGGGCAGCATGATGTCCTCTTCTTAGGGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004476:ENSGALT00000007127:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.205
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(12.2=100)
A:
NA
C2:
PF0140314=Sema=FE(19.6=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:
AAGTCTTCAACGGGCCCTTTG
R:
CTGCTGCAGGTCAGTCTTCAC
Band lengths:
251-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]