HsaINT0147403 @ hg19
Intron Retention
Gene
ENSG00000095539 | SEMA4G
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G [Source:HGNC Symbol;Acc:10735]
Coordinates
chr10:102738284-102738775:+
Coord C1 exon
chr10:102738284-102738397
Coord A exon
chr10:102738398-102738605
Coord C2 exon
chr10:102738606-102738775
Length
208 bp
Sequences
Splice sites
5' ss Seq
ATGGTTAGG
5' ss Score
3.39
3' ss Seq
TCAAACTGCCTGACCCACAGATG
3' ss Score
7.43
Exon sequences
Seq C1 exon
ATGGAGGCCTCTACACAGCCACTAGGTATGAATTCCGGAGCATTCCTGACATCCGCCGGAGCCGCCACCCACACTCCCTGAGAACTGAGGAGACACCAATGCATTGGCTCAATG
Seq A exon
GTTAGGAGGATGAGGCACAGGATGATGGGGGGTAGGGGACTATTTCTTCATTTTTACTCCCTTGGCCAGCTGACCACCCCACCCCCAAATCCCCAGGTGAGCCTGTCCATTCCATTCCTGTGTGTTGTCAAGTGAGGGGTCAGCCTCAGAGTGAGGGAAAGGAATCCCCAGCCTGTCTCAAAAGCCTCTCAAACTGCCTGACCCACAG
Seq C2 exon
ATGCGGAGTTTGTGTTCTCCGTCCTCGTGCGGGAGAGCAAGGCCAGTGCAGTGGGTGATGATGACAAGGTGTACTACTTCTTCACGGAGCGTGCCACTGAGGAGGGCTCTGGCAGCTTCACTCAGAGCCGCAGCAGTCACCGTGTGGCCCGTGTGGCTCGTGTCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095539-SEMA4G:NM_017893:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(8.8=100)
A:
NA
C2:
PF0140314=Sema=FE(12.9=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:
ATGGAGGCCTCTACACAGCC
R:
CTTGCAGACACGAGCCACAC
Band lengths:
284-492
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)