HsaINT0147307 @ hg19
Intron Retention
Gene
ENSG00000010319 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:30400]
Coordinates
chr3:52471543-52472215:-
Coord C1 exon
chr3:52471987-52472215
Coord A exon
chr3:52471683-52471986
Coord C2 exon
chr3:52471543-52471682
Length
304 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CAACCTCTGCCTCTCTCCAGAAG
3' ss Score
8.99
Exon sequences
Seq C1 exon
CAAATGCTATACGTGGGCTCTCGGCTGGGTGTGGCCCAGCTGCGGCTGCACCAATGTGAGACTTACGGCACTGCCTGTGCAGAGTGCTGCCTGGCCCGGGACCCATACTGTGCCTGGGATGGTGCCTCCTGTACCCACTACCGCCCCAGCCTTGGCAAGCGCCGGTTCCGCCGGCAGGACATCCGGCACGGCAACCCTGCCCTGCAGTGCCTGGGCCAGAGCCAGGAAG
Seq A exon
GTGAGTGGTGGCAGGTGGGAGGGCCCAGACTGGGCTGGAACTCACCCCTGTGGCCCGGCTCCACCCCTGCGAAGTGCATTCTCAGATTGGTCTTGTCATGACGGATAGTCCTCAGTTTCCCTCTCTGTGTAGCTCCTGCTAGTGCATGGAAGCAGGGTCTTTGGACACAGTGGCTGGCTTGGGGATCCACGCATGCCTAAGTTCTTGTCATACTAGTGGGGCTCCTGAGCTGTGGTGTCAGGTGGTGGCACTGGGATCTGGGTCCCATAGTTCCCAAGCTGAGCCAACCTCTGCCTCTCTCCAG
Seq C2 exon
AAGAGGCAGTGGGACTTGTGGCAGCCACCATGGTCTACGGCACGGAGCACAATAGCACCTTCCTGGAGTGCCTGCCCAAGTCTCCCCAGGCTGCTGTGCGCTGGCTCTTGCAGAGGCCAGGGGATGAGGGGCCTGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010319-SEMA3G:NM_020163:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.191
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(96.7=76.6)
A:
NA
C2:
PF0143720=PSI=PD(1.6=2.1),PF0004720=ig=PU(48.4=63.8)
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:
ATGCTATACGTGGGCTCTCGG
R:
CCTCATCCCCTGGCCTCTG
Band lengths:
355-659
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)