HsaINT0147311 @ hg19
Intron Retention
Gene
ENSG00000010319 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:30400]
Coordinates
chr3:52475835-52476320:-
Coord C1 exon
chr3:52476201-52476320
Coord A exon
chr3:52475926-52476200
Coord C2 exon
chr3:52475835-52475925
Length
275 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CCCTCTCTCCCTCCCACTAGCAT
3' ss Score
10.19
Exon sequences
Seq C1 exon
ACAGAGTGCGCCAACTTCGTGCGGGTGCTACAGCCTCACAACCGGACCCACCTGCTAGCCTGTGGCACTGGGGCCTTCCAGCCCACCTGTGCCCTCATCACAGTTGGCCACCGTGGGGAG
Seq A exon
GTGAGCCTGGGCCAGGCCCCACAAGGGACTGGGAGGCAGTGACATTTCCTCCCTGCTGCCTGAACATTCCCATTGAGCCTGGGTAGGGACAGAGGGGCAGGGGCCTGAAAGGCGCCTTTGTGTTGGGGAGCTGACCCCATTAGAGGGGCCCTGGATGAGGACGCCTTCCGCCCACCCCCGCTCTCTGGCCGCACGCGAGGGCTCCTGCTTGGGTGTGGGCTGCTGGTGCTTCTCTCCCAGGTGACGCCCCTCCCTCCCTCTCTCCCTCCCACTAG
Seq C2 exon
CATGTGCTCCACCTGGAGCCTGGCAGTGTGGAAAGTGGCCGGGGGCGGTGCCCTCACGAGCCCAGCCGTCCCTTTGCCAGCACCTTCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010319-SEMA3G:NM_020163:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.117 A=NA C2=0.423
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(35.1=100)
A:
NA
C2:
PF0140314=Sema=FE(6.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGTGCGCCAACTTCGTG
R:
TATGAAGGTGCTGGCAAAGGG
Band lengths:
208-483
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)