Variant report

Variant	rs17122871
Chromosome Location	chr1:62438910-62438911
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr1:62438769-62439219	MCF10A-Er-Src	breast:	n/a	n/a
2	STAT3	chr1:62438822-62439160	MCF10A-Er-Src	breast:	n/a	chr1:62439010-62439017 chr1:62438981-62438992
3	E2F4	chr1:62438634-62439009	MCF10A-Er-Src	breast:	n/a	n/a
4	POLR2A	chr1:62438811-62439008	MCF10A-Er-Src	breast:	n/a	n/a
5	FOS	chr1:62438813-62439128	MCF10A-Er-Src	breast:	n/a	n/a
6	MYC	chr1:62438823-62439124	MCF10A-Er-Src	breast:	n/a	n/a
7	POLR2A	chr1:62438785-62439197	H1-neurons	neurons:	n/a	n/a
8	STAT3	chr1:62438740-62439206	MCF10A-Er-Src	breast:	n/a	chr1:62439010-62439017 chr1:62438981-62438992
9	STAT3	chr1:62438899-62439132	MCF10A-Er-Src	breast:	n/a	chr1:62439010-62439017 chr1:62438981-62438992
10	POLR2A	chr1:62438788-62439097	H1-neurons	neurons:	n/a	n/a
11	STAT3	chr1:62438798-62439174	MCF10A-Er-Src	breast:	n/a	chr1:62439010-62439017 chr1:62438981-62438992
12	FOS	chr1:62438816-62439128	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
INADL	TF binding region

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10889273	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11585194	0.90[ASN][1000 genomes]
rs11801995	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11804927	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11810455	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12059237	0.80[EUR][1000 genomes]
rs12059478	0.80[EUR][1000 genomes]
rs12090332	0.80[EUR][1000 genomes]
rs12724144	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12725114	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12725290	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12731388	0.80[EUR][1000 genomes]
rs12731725	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12735117	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12738266	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12740631	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12748525	0.90[ASN][1000 genomes]
rs12749323	0.80[EUR][1000 genomes]
rs12749575	0.80[EUR][1000 genomes]
rs12749947	0.80[EUR][1000 genomes]
rs12753435	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12756068	0.80[EUR][1000 genomes]
rs1556482	0.80[EUR][1000 genomes]
rs1556483	0.80[EUR][1000 genomes]
rs1556484	0.80[EUR][1000 genomes]
rs1556485	0.80[EUR][1000 genomes]
rs17122873	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17313118	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17378746	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17382499	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2365734	0.90[EUR][1000 genomes]
rs2482893	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2482894	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2498973	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2498975	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2886446	0.87[EUR][1000 genomes]
rs2990508	0.90[ASN][1000 genomes]
rs34115734	0.80[EUR][1000 genomes]
rs34158435	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34189113	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34394793	0.80[EUR][1000 genomes]
rs34843158	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34896171	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34935930	0.80[EUR][1000 genomes]
rs34986631	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35411216	0.80[EUR][1000 genomes]
rs35523060	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35663562	0.80[EUR][1000 genomes]
rs35702885	0.80[EUR][1000 genomes]
rs35814605	0.90[EUR][1000 genomes]
rs35899620	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36125117	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3762447	0.80[EUR][1000 genomes]
rs56033850	0.80[EUR][1000 genomes]
rs66472440	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs66606678	0.86[EUR][1000 genomes]
rs6667051	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6678412	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6685239	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs67395722	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67412592	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67439419	0.80[EUR][1000 genomes]
rs67786436	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72677923	0.80[EUR][1000 genomes]
rs72677926	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7514549	0.91[EUR][1000 genomes]
rs7517453	0.80[EUR][1000 genomes]
rs7520931	0.90[ASN][1000 genomes]
rs7526627	0.80[EUR][1000 genomes]
rs7529379	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7543658	0.80[EUR][1000 genomes]
rs7543741	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:46 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv518627	chr1:62279594-62517947	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv522020	chr1:62279594-62517947	Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv531876	chr1:62302313-62504349	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv1004446	chr1:62394631-62813533	Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
5	nsv534984	chr1:62394631-62813533	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
6	nsv1110	chr1:62395723-62454435	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1001667	chr1:62407786-62649838	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
8	nsv437210	chr1:62419727-62448245	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	esv2753481	chr1:62424207-62478878	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv1010655	chr1:62427826-62447302	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv3693433	chr1:62429665-62448451	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv1805048	chr1:62433100-62448451	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv1812337	chr1:62433100-62448451	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	esv1814392	chr1:62433100-62448451	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv1815127	chr1:62433100-62448451	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv1806702	chr1:62433100-62452173	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv1807506	chr1:62433100-62452173	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	esv1813605	chr1:62433814-62453540	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	nsv10217	chr1:62433904-62453204	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
20	nsv1009859	chr1:62435767-62447302	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
21	nsv997843	chr1:62436088-62447302	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
22	nsv947429	chr1:62436550-62451607	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
23	nsv1014528	chr1:62436620-62447302	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
24	nsv1003774	chr1:62436620-62454784	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
25	esv1811896	chr1:62436742-62453709	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
26	nsv1004315	chr1:62436855-62447302	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
27	esv1809443	chr1:62436919-62451704	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
28	nsv517696	chr1:62436929-62441788	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases
29	nsv437211	chr1:62436929-62448245	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
30	esv1804229	chr1:62436929-62448451	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
31	esv1805701	chr1:62436929-62448451	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
32	esv1807890	chr1:62436929-62448451	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
33	esv1810920	chr1:62436929-62448451	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
34	esv1810004	chr1:62436942-62451029	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
35	esv1807254	chr1:62436942-62453509	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
36	esv3452290	chr1:62437410-62452563	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
37	esv3452291	chr1:62437410-62452563	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
38	esv10531	chr1:62437799-62452376	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
39	nsv818189	chr1:62437872-62441788	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
40	esv1804205	chr1:62437872-62448451	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
41	esv1806678	chr1:62437872-62448451	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
42	esv1808162	chr1:62437872-62448451	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
43	esv1813198	chr1:62437872-62448451	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
44	esv2421746	chr1:62437872-62450535	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
45	nsv546416	chr1:62437872-62492215	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
46	esv1804196	chr1:62437899-62451229	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:62385000-62494200	Weak transcription	Aorta	Aorta
2	chr1:62409200-62456000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr1:62409200-62456800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr1:62409200-62457000	Weak transcription	Fetal Intestine Large	intestine
5	chr1:62409200-62518600	Weak transcription	Pancreas	Pancrea
6	chr1:62409400-62458400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:62418200-62446400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:62418400-62441400	Weak transcription	Fetal Kidney	kidney
9	chr1:62419600-62445800	Weak transcription	Left Ventricle	heart
10	chr1:62424200-62494200	Weak transcription	Esophagus	oesophagus
11	chr1:62425000-62441400	Weak transcription	Stomach Mucosa	stomach
12	chr1:62430600-62442200	Weak transcription	Fetal Intestine Small	intestine
13	chr1:62432200-62439000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:62433400-62439200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr1:62433600-62456800	Weak transcription	NHEK	skin
16	chr1:62433800-62444800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr1:62433800-62445400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr1:62434000-62457000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:62434800-62444800	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr1:62438400-62439000	Enhancers	Liver	Liver
21	chr1:62438400-62439200	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr1:62438600-62439600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr1:62438600-62439600	Enhancers	Placenta Amnion	Placenta Amnion
24	chr1:62438600-62445000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr1:62438800-62439000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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