Variant report

Variant	rs61874730
Chromosome Location	chr10:93638556-93638557
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:93638059..93641672-chr10:93681049..93683589,4	MCF-7	breast:
2	chr10:93638107..93642679-chr10:93666717..93670620,8	MCF-7	breast:
3	chr10:93620389..93623626-chr10:93637886..93641413,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174721	Chromatin interaction
ENSG00000272817	Chromatin interaction
ENSG00000095564	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10509636	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10786019	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881969	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10881971	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10881975	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10881980	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10881981	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881985	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881989	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11186697	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12220444	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12221087	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12412538	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12413090	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12413256	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12782935	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1417254	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1539040	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2066275	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2297960	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3758499	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4390259	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4603212	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61874731	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7082350	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7087365	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7903827	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7906805	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7912927	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7913826	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7913999	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7917710	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7919141	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7921354	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][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:5)

SNP	Gene	Cis/trans	Tissue	Source
rs61874730	TNKS2	cis	Nerve Tibial	GTEx
rs61874730	TNKS2	cis	Thyroid	GTEx
rs61874730	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs61874730	TNKS2	cis	Skin Sun Exposed Lower leg	GTEx
rs61874730	TNKS2	cis	Esophagus Muscularis	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

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