HsaINT0147303 @ hg38
Intron Retention
Gene
ENSG00000010319 | SEMA3G
Description
semaphorin 3G [Source:HGNC Symbol;Acc:HGNC:30400]
Coordinates
chr3:52439867-52440521:-
Coord C1 exon
chr3:52440377-52440521
Coord A exon
chr3:52440099-52440376
Coord C2 exon
chr3:52439867-52440098
Length
278 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CCCTTCCCTGCTGCCCACAGTGC
3' ss Score
9.71
Exon sequences
Seq C1 exon
TGCCGTGTTCCAGGGCTTCGCCGTCTGTGTGTACCACATGGCAGACATCTGGGAGGTTTTCAACGGGCCCTTTGCCCACCGAGATGGGCCTCAGCACCAGTGGGGGCCCTATGGGGGCAAGGTGCCCTTCCCTCGCCCTGGCGTG
Seq A exon
GTGAGTATCTGCTGGGGCCAGGCCAGGGAAGCGAGGCCTGAGCAGATGTGGGGAAGGGCTCCTTGGAGTGGCCTCATGTCCCCATGCACCCCCACGGCAGCGGACGTTGGCCAAGCCTGGGCTCCAGAGGGCCTGGGTGGGGTGGGGTGGGTGTAGTGGAAGAGGAGAGCCCTCCTGCAGTGAGAGAGGTCCCCCTGGTTGGGGTGGAAACAGACTGGCGGTGGAGGGTGTGTGCTGTCTCAGGATACTTCAGGCACTCCCTTCCCTGCTGCCCACAG
Seq C2 exon
TGCCCCAGCAAGATGACCGCACAGCCAGGACGGCCTTTTGGCAGCACCAAGGACTACCCAGATGAGGTGCTGCAGTTTGCCCGAGCCCACCCCCTCATGTTCTGGCCTGTGCGGCCTCGACATGGCCGCCCTGTCCTTGTCAAGACCCACCTGGCCCAGCAGCTACACCAGATCGTGGTGGACCGCGTGGAGGCAGAGGATGGGACCTACGATGTCATTTTCCTGGGGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010319:ENST00000231721:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.8=100)
A:
NA
C2:
PF0140314=Sema=FE(17.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTTTTCAACGGGCCCTTT
R:
ATCGTAGGTCCCATCCTCTGC
Band lengths:
306-584
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development