HsaINT0147309 @ hg19
Intron Retention
Gene
ENSG00000010319 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:30400]
Coordinates
chr3:52476575-52476923:-
Coord C1 exon
chr3:52476763-52476923
Coord A exon
chr3:52476638-52476762
Coord C2 exon
chr3:52476575-52476637
Length
125 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCAGCGGGGCTGTGTTCCAGGTC
3' ss Score
6.18
Exon sequences
Seq C1 exon
ACCTCCTGTCTGCCAACCGCTCTGCCATCTTTCTGGGCCCCCAGGGCTCCCTGAACCTCCAGGCCATGTACCTAGATGAGTACCGAGACCGCCTCTTTCTGGGTGGCCTGGACGCCCTCTACTCTCTGCGGCTGGACCAGGCATGGCCAGATCCCCGGGAG
Seq A exon
GTGAGCTGGACTGGCAGGGAAGAGGGTCTGTTTGAGAACTGGGCACCTCCAGATGGGAGGCCAGATGGGGAAACTGAGCCTGTGAGATCAGGGGAGGACCTGAGGTCAGCGGGGCTGTGTTCCAG
Seq C2 exon
GTCCTGTGGCCACCGCAGCCAGGACAGAGGGAGGAGTGTGTTCGAAAGGGAAGAGATCCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010319-SEMA3G:NM_020163:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.619
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(30.6=63.0)
A:
NA
C2:
PF0140314=Sema=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCCTGTCTGCCAACCG
R:
GGATCTCTTCCCTTTCGAACACA
Band lengths:
220-345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)