GgaINT0022444 @ galGal4
Intron Retention
Gene
ENSGALG00000004476 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:HGNC:30400]
Coordinates
chr12:3118857-3119530:-
Coord C1 exon
chr12:3119391-3119530
Coord A exon
chr12:3119304-3119390
Coord C2 exon
chr12:3118857-3119303
Length
87 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CTCATAGCCATGGCCGACAGGTA
3' ss Score
2.44
Exon sequences
Seq C1 exon
TGGATGACTTGGAGCATGTTGAAGAGAAGGTGCTGTATGGCATGGAGCACAACAGCACCTTCCTGGAGTGTGTGCCCCGCTCCCCGCAGGCCAGCGTGCAGTGGTTTGTGCAGAGACCCCCGGATGAGCAGAGGGATGAG
Seq A exon
GTGAGACCCCAGCACCCGCCCTGCCCTGCTCCTTCCCTTCTCCCCGCCAAAGGGATGAAGGACTGACCTCATAGCCATGGCCGACAG
Seq C2 exon
GTAAAGACAGATGAGCGGGTCCTGCAGACAGAGCAAGGGCTGCTCTTCCGCCAGCTGCACCGCCGTGATGCCGGGGTCTACTACTGCAAGACACTGGAGCATGGCTTTACCCAGACGGTGGCCAAGACAGCCCTGGAGGTGCTTGGGGGCGAGCAGCTTGCCCGTGCTACACCCCGGCAAAGGGAGGACAGGCACCCACCCTGTCCTGAGCCCTGGCTGGCAGCACCTGCACCCAAAACCTGGTACAAGGACATCCTGCACCTCGCCAGCTCAGCCGACCGGCAGCGGGTGGAGGAGCAGTGCCTGCGCCTGTGGTGCGGCCACCGCAAGGGCAAGATGGCCAAGGGCAAGCACGCGCTGGCTGGCATGGATGTGGGCAAGAAGGGGCGCGTGGCCAAACCACACGGTGAGAGGATCCGTGTGCCCCGGCAAGCTGCAGCCACTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004476:ENSGALT00000007127:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.255 A=NA C2=0.419
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(1.8=2.1),PF0768612=V-set=PU(48.4=95.7)
A:
NA
C2:
PF0768612=V-set=PD(49.5=30.9)
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:
CAACAGCACCTTCCTGGAGTG
R:
CAGTAGTAGACCCCGGCATCA
Band lengths:
177-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]