Variant report

Variant	rs72823162
Chromosome Location	chr10:93638057-93638058
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	chr10:93620389..93623626-chr10:93637886..93641413,3	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10736066	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1417257	1.00[ASN][1000 genomes]
rs1538832	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17347260	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17433251	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1772181	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1772186	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1772188	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2258946	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2259094	0.81[EUR][1000 genomes]
rs2259287	0.81[EUR][1000 genomes]
rs2421705	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2421706	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61743258	0.81[ASN][1000 genomes]
rs61874701	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61874749	0.81[ASN][1000 genomes]
rs61876142	0.81[ASN][1000 genomes]
rs61876148	0.81[ASN][1000 genomes]
rs61876151	0.81[ASN][1000 genomes]
rs6583789	0.81[EUR][1000 genomes]
rs6583790	0.93[EUR][1000 genomes]
rs6583792	1.00[ASN][1000 genomes]
rs7089495	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7093658	0.90[ASN][1000 genomes]
rs72823110	0.81[ASN][1000 genomes]
rs7912830	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7917198	0.81[ASN][1000 genomes]
rs7917450	0.81[ASN][1000 genomes]
rs7919191	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv7491	chr10:93626192-93671694	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv1819110	chr10:93634155-93643195	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	esv1842657	chr10:93634155-93668663	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs72823162	TNKS2	cis	Thyroid	GTEx
rs72823162	TNKS2	cis	Nerve Tibial	GTEx
rs72823162	TNKS2-AS1	cis	Thyroid	GTEx

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93608800-93639200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:93608800-93643400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr10:93618400-93639400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr10:93622600-93639000	Weak transcription	Brain Germinal Matrix	brain
5	chr10:93622800-93639200	Weak transcription	Brain Angular Gyrus	brain
6	chr10:93624200-93639200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:93625800-93639000	Weak transcription	Fetal Brain Female	brain
8	chr10:93626200-93639600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr10:93626200-93643000	Weak transcription	HSMMtube	muscle
10	chr10:93627600-93639000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr10:93627600-93639600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr10:93627800-93639000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr10:93629600-93638800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr10:93629600-93639000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr10:93629600-93639200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr10:93632800-93639200	Weak transcription	Placenta	Placenta
17	chr10:93634800-93639000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr10:93634800-93639000	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr10:93634800-93639000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr10:93635000-93643200	Weak transcription	Right Atrium	heart
21	chr10:93635200-93639200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr10:93637400-93639200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr10:93637800-93639000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links