Variant report

Variant	rs73170169
Chromosome Location	chr7:150008036-150008037
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:150006854..150009038-chr7:150044766..150046697,2	MCF-7	breast:
2	chr7:150007648..150010098-chr7:150018612..150020930,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106526	Chromatin interaction
ENSG00000127399	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1047207	0.84[EUR][1000 genomes]
rs1047575	0.81[EUR][1000 genomes]
rs1047586	0.81[EUR][1000 genomes]
rs10952249	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10952250	0.84[EUR][1000 genomes]
rs1132261	0.87[AFR][1000 genomes]
rs11764936	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11765644	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11765692	0.85[EUR][1000 genomes]
rs11766288	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11767726	0.88[EUR][1000 genomes]
rs11769348	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11773351	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11974980	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11975886	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11983355	0.88[EUR][1000 genomes]
rs13223702	0.87[AFR][1000 genomes]
rs1464752	0.82[EUR][1000 genomes]
rs1464753	0.85[EUR][1000 genomes]
rs17173617	0.84[EUR][1000 genomes]
rs17837498	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1916932	0.85[EUR][1000 genomes]
rs1962004	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1983440	0.85[EUR][1000 genomes]
rs2098053	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2108851	0.88[EUR][1000 genomes]
rs2108852	0.88[EUR][1000 genomes]
rs2108853	0.88[EUR][1000 genomes]
rs2108854	0.88[EUR][1000 genomes]
rs2159234	0.88[EUR][1000 genomes]
rs2159235	0.88[EUR][1000 genomes]
rs2159236	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2373751	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3088207	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34489187	0.94[AFR][1000 genomes]
rs34728606	0.87[AFR][1000 genomes]
rs36069544	0.81[AFR][1000 genomes]
rs3735167	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3735169	0.90[EUR][1000 genomes]
rs3735170	0.90[EUR][1000 genomes]
rs3735171	0.91[EUR][1000 genomes]
rs3735172	0.85[EUR][1000 genomes]
rs3735173	0.87[EUR][1000 genomes]
rs3735174	0.87[EUR][1000 genomes]
rs3735175	0.88[EUR][1000 genomes]
rs3800780	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3800781	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4395803	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4554381	0.84[EUR][1000 genomes]
rs55715989	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55881542	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55974958	0.84[EUR][1000 genomes]
rs56019796	0.92[EUR][1000 genomes]
rs56190213	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56402329	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56923535	0.92[EUR][1000 genomes]
rs56998970	0.93[EUR][1000 genomes]
rs57888387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59572505	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs60268791	0.83[EUR][1000 genomes]
rs60283368	0.85[EUR][1000 genomes]
rs60467296	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61421252	0.84[EUR][1000 genomes]
rs6964110	0.83[EUR][1000 genomes]
rs73170174	0.88[EUR][1000 genomes]
rs73170185	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73170192	0.80[EUR][1000 genomes]
rs7781827	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7788316	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7806429	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs883138	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv889435	chr7:149585379-150013393	ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1034409	chr7:149844639-150447071	Flanking Active TSS Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
3	nsv608990	chr7:149961274-150707488	Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
4	nsv1015582	chr7:149967986-150285104	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
5	nsv981608	chr7:150002640-150009746	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv508490	chr7:150006068-150051241	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs73170169	LRRC61	cis	Nerve Tibial	GTEx
rs73170169	LRRC61	cis	Adipose Subcutaneous	GTEx
rs73170169	LRRC61	cis	Skin Sun Exposed Lower leg	GTEx
rs73170169	ACTR3C	cis	Muscle Skeletal	GTEx
rs73170169	LRRC61	cis	Thyroid	GTEx
rs73170169	LRRC61	cis	Artery Tibial	GTEx
rs73170169	LRRC61	cis	Esophagus Mucosa	GTEx
rs73170169	LRRC61	cis	lung	GTEx
rs73170169	LRRC61	cis	Muscle Skeletal	GTEx
rs73170169	REPIN1	cis	Muscle Skeletal	GTEx
rs73170169	ZBED6CL	cis	Esophagus Muscularis	GTEx

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:149984200-150012400	Weak transcription	Liver	Liver
2	chr7:149984200-150019400	Weak transcription	Colonic Mucosa	Colon
3	chr7:149992400-150018000	Weak transcription	Fetal Intestine Small	intestine
4	chr7:150003800-150016000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr7:150004000-150019000	Weak transcription	Primary hematopoietic stem cells	blood
6	chr7:150005200-150010000	Weak transcription	HepG2	liver
7	chr7:150007000-150009200	Enhancers	K562	blood
8	chr7:150007000-150010200	Enhancers	Hela-S3	cervix
9	chr7:150007000-150015000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr7:150007200-150009000	Enhancers	Pancreas	Pancrea
11	chr7:150007600-150018000	Weak transcription	Fetal Intestine Large	intestine
12	chr7:150007800-150008800	Weak transcription	HSMM	muscle
13	chr7:150008000-150010400	Enhancers	Fetal Muscle Leg	muscle

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