HsaINT0147314 @ hg19
Intron Retention
Gene
ENSG00000010319 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:30400]
Coordinates
chr3:52474950-52475425:-
Coord C1 exon
chr3:52475280-52475425
Coord A exon
chr3:52475065-52475279
Coord C2 exon
chr3:52474950-52475064
Length
215 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
TCTGGCCCCTTATCCTGCAGAAT
3' ss Score
10.91
Exon sequences
Seq C1 exon
ACCCCCGGTTTGTGATGGCCGCCCGGATCCCTGAGAACTCTGACCAGGACAATGACAAGGTGTACTTCTTCTTCTCGGAGACGGTCCCCTCGCCCGATGGTGGCTCGAACCATGTCACTGTCAGCCGCGTGGGCCGCGTCTGCGTG
Seq A exon
GTAAGAGCTGGGAAGGGGTGGTGAGGTTCAAGTCCCTGCTACACCCTCCCATTCCCAGACCTTTCTCCCCCCACCCCTGGCCAGCAGTAGGGAAACTGAGGCAAGGATGCAAAGCTGACATGCATACCTCTCCCCGAGTGGGTGAGGGTAGAAGAGTGGATGGTGGGACCCATCCTCGTGGGGCCCAAGCGTGACTCTGGCCCCTTATCCTGCAG
Seq C2 exon
AATGATGCTGGGGGCCAGCGGGTGCTGGTGAACAAATGGAGCACTTTCCTCAAGGCCAGGCTGGTCTGCTCGGTGCCCGGCCCTGGTGGTGCCGAGACCCACTTTGACCAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010319-SEMA3G:NM_020163:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.8=100)
A:
NA
C2:
PF0140314=Sema=FE(8.5=100)
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:
CCCCCGGTTTGTGATGGC
R:
CTAGCTGGTCAAAGTGGGTCT
Band lengths:
260-475
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)