Variant report

Variant	rs7178265
Chromosome Location	chr15:33105403-33105404
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10519756	1.00[LWK][hapmap];0.81[MKK][hapmap]
rs11631339	1.00[LWK][hapmap];0.94[MKK][hapmap]
rs12438573	1.00[CHB][hapmap]
rs1258797	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12906786	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12916120	1.00[ASN][1000 genomes]
rs13329660	1.00[ASN][1000 genomes]
rs17228641	1.00[LWK][hapmap]
rs17816387	1.00[LWK][hapmap];0.94[MKK][hapmap]
rs4780042	1.00[CHB][hapmap];0.96[GIH][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55752067	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62001277	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74011141	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv482680	chr15:32958401-33154005	Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv832961	chr15:33021177-33134988	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv903977	chr15:33040782-33117302	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv1482	chr15:33083166-33113644	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7178265	GABRG3	cis	parietal	SCAN
rs7178265	C20orf103	trans	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33061200-33141000	Weak transcription	Placenta	Placenta
2	chr15:33062600-33111200	Weak transcription	Gastric	stomach
3	chr15:33088800-33107800	Weak transcription	Stomach Mucosa	stomach
4	chr15:33096200-33111000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr15:33096200-33111000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:33096200-33154000	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr15:33096400-33105800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr15:33096400-33109600	Weak transcription	Osteobl	bone
9	chr15:33096400-33110800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr15:33096400-33111000	Weak transcription	NHLF	lung
11	chr15:33096400-33111400	Weak transcription	HSMMtube	muscle
12	chr15:33096400-33116200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr15:33096400-33159000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:33100200-33111000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr15:33103600-33107600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr15:33103800-33139200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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