GgaINT1024720 @ 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
chr12:3123699-3124115:-
Coord C1 exon
chr12:3123966-3124115
Coord A exon
chr12:3123762-3123965
Coord C2 exon
chr12:3123699-3123761
Length
204 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
AAAGGACCTTTGTGTTCCAGATC
3' ss Score
6.67
Exon sequences
Seq C1 exon
ATGAACCGCTCCGTCCTTTTCTTTGGCCACCGGGGCTTCCTGGGCTTCCGCTCCCTCTACCTGGATGAGTACCGTGACCGGCTCTTCATTGGGGGCAAGGATGTGCTCTACTCCCTGCGTCTGGACAGGGCCAGCGCCGACACCAAGGAG
Seq A exon
GTGAGCCGGGTCCTGCAGGCACTGTGACCACCCCGTGCCAGGTGAAGCCACCCCACAGCGAGGACTCCAAAAGGCATCCCGAAGCAATTAGCTGCTGGGGGGTGGTGGTTCCCGAGCTTGTCCCAGCAGCCCAGGGATGAGGGTCACAAGGAGTCCGTGCCCGCTGTCCCCTCCACCTGCTCCCAAAGGACCTTTGTGTTCCAG
Seq C2 exon
ATCTACTGGCCGCCACTGCCTGGACAGACGGAGGAGTGTTTTCGGAAGGGGAAGGACCCAGCA
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=0.048
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(7.6=68.0)
A:
NA
C2:
PF0140314=Sema=FE(4.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAACCGCTCCGTCCTTTTC
R:
GGTCCTTCCCCTTCCGAAAAC
Band lengths:
208-412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]