GgaINT0022443 @ galGal3
Intron Retention
Gene
ENSGALG00000004476 | SEMA3G
Description
NA
Coordinates
chr12:2946923-2947467:-
Coord C1 exon
chr12:2947254-2947467
Coord A exon
chr12:2947063-2947253
Coord C2 exon
chr12:2946923-2947062
Length
191 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CACTTCTGTCTCCGCCCCAGTGG
3' ss Score
6.71
Exon sequences
Seq C1 exon
CAAAAGCTTTATGTGGGCGCCAGCCTGGGGGTGGCCCAGGTGCGGCTGCACCAGTGCAAGAGCTACGGCACTGCCTGTGCTGAGTGCTGCCTGGCCAGGGACCCGTACTGTGCCTGGGATGGCACTGCCTGCACCCGCTACCAGCCCTCGGGCAAGCGCCGCCACGTCCGCCACACCAGCTCTGTGCACCAGTGCCTGGACCAGAACCTGACTG
Seq A exon
GTGAGAGGCTGGGGGGTCCCGAGATGTCCAGAACCCCTATTGCCCTGTCCTGTGGTGCCCCAAGGGAAGCCGGGGCCCTCAGGGAGGTCTGTCCCTGGCGGGCACCAAAGCCATGCCGCCTGGGGAGGTGATGGGGCGTAGAGTGGCTTGGCTTTGCCTTCACCATGTACACACTTCTGTCTCCGCCCCAG
Seq C2 exon
TGGATGACTTGGAGCATGTTGAAGAGAAGGTGCTGTATGGCATGGAGCACAACAGCACCTTCCTGGAGTGTGTGCCCCGCTCCCCGCAGGCCAGCGTGCAGTGGTTTGTGCAGAGACCCCCGGATGAGCAGAGGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004476:ENSGALT00000007127:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.255
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(96.4=75.0)
A:
NA
C2:
PF0143720=PSI=PD(1.8=2.1),PF0768612=V-set=PU(48.4=95.7)
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:
CAAAAGCTTTATGTGGGCGCC
R:
TGCCATACAGCACCTTCTCTT
Band lengths:
256-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]