Variant report

Variant	rs7895724
Chromosome Location	chr10:61569410-61569411
allele	A/G
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	RAD21	chr10:61569065-61569518	ECC-1	luminal epithelium:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
2	CTCF	chr10:61569158-61569447	MCF-7	breast:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
3	RAD21	chr10:61569111-61569488	IMR90	lung:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
4	CTCF	chr10:61569260-61569410	HBMEC	blood vessel:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
5	CTCF	chr10:61569260-61569410	BE2_C	brain:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
6	CTCF	chr10:61569260-61569410	BJ	skin:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
7	CTCF	chr10:61569177-61569454	HUVEC	blood vessel:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
8	RAD21	chr10:61569001-61569502	H1-hESC	embryonic stem cell:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
9	USF1	chr10:61569198-61569477	H1-hESC	embryonic stem cell:	n/a	n/a
10	ZNF143	chr10:61569155-61569487	H1-hESC	embryonic stem cell:	n/a	n/a
11	USF1	chr10:61569155-61569413	SK-N-SH_RA	brain:	n/a	n/a
12	CTCF	chr10:61569086-61569489	H1-hESC	embryonic stem cell:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
13	RAD21	chr10:61569094-61569520	H1-hESC	embryonic stem cell:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
14	CTCF	chr10:61569168-61569458	GM19240	blood:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
15	CTCF	chr10:61569260-61569410	GM06990	blood:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
16	SMC3	chr10:61569124-61569511	Hela-S3	cervix:	n/a	chr10:61569306-61569316 chr10:61569306-61569320
17	RAD21	chr10:61569081-61569493	SK-N-SH_RA	brain:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
18	CTCF	chr10:61569260-61569410	AG04450	lung:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
19	ZNF143	chr10:61569158-61569451	Hela-S3	cervix:	n/a	n/a
20	CTCF	chr10:61569165-61569489	Spleen_OC	spleen:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
21	JUND	chr10:61569112-61569491	K562	blood:	n/a	chr10:61569265-61569273 chr10:61569263-61569275 chr10:61569263-61569274
22	CTCF	chr10:61569108-61569523	GM12878	blood:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
23	CTCF	chr10:61569176-61569447	ProgFib	skin:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
24	RFX5	chr10:61569244-61569438	GM12878	blood:	n/a	n/a
25	CTCF	chr10:61569162-61569459	NHEK	skin:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
26	CTCF	chr10:61569197-61569450	LNCaP	prostate:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
27	CTCF	chr10:61569260-61569410	AG09309	skin:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
28	ZNF263	chr10:61569094-61569882	HEK293-T-REx	kidney:	n/a	chr10:61569357-61569366 chr10:61569360-61569369
29	CTCF	chr10:61569260-61569410	GM12878	blood:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
30	CTCF	chr10:61569163-61569458	GM19239	blood:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
31	USF2	chr10:61569234-61569504	H1-hESC	embryonic stem cell:	n/a	n/a
32	JUND	chr10:61569170-61569447	HepG2	liver:	n/a	chr10:61569265-61569273 chr10:61569263-61569275 chr10:61569263-61569274
33	RAD21	chr10:61569102-61569493	Hela-S3	cervix:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
34	CTCF	chr10:61569160-61569439	HepG2	liver:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
35	RAD21	chr10:61569122-61569439	K562	blood:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
36	RAD21	chr10:61569051-61569545	HepG2	liver:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
37	ZNF143	chr10:61569122-61569471	GM12878	blood:	n/a	n/a
38	SIN3A	chr10:61569150-61569463	H1-hESC	embryonic stem cell:	n/a	n/a
39	CTCF	chr10:61569232-61569416	GM20000	blood:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
40	ZNF143	chr10:61569151-61569485	K562	blood:	n/a	n/a
41	BHLHE40	chr10:61569139-61569496	K562	blood:	n/a	n/a
42	RAD21	chr10:61569099-61569510	A549	lung:	n/a	chr10:61569305-61569318 chr10:61569304-61569316 chr10:61569306-61569316 chr10:61569306-61569320 chr10:61569302-61569321
43	CTCF	chr10:61569159-61569470	MCF-7	breast:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
44	CTCF	chr10:61569182-61569433	H1-hESC	embryonic stem cell:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
45	CTCF	chr10:61569162-61569444	MCF-7	breast:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
46	CTCF	chr10:61569139-61569503	T-47D	breast:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
47	CTCF	chr10:61569280-61569430	HFF-Myc	foreskin:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
48	CTCF	chr10:61569112-61569592	MCF-7	breast:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322
49	TBL1XR1	chr10:61569232-61569453	K562	blood:	n/a	n/a
50	CTCF	chr10:61569159-61569464	GM19238	blood:	n/a	chr10:61569299-61569320 chr10:61569306-61569319 chr10:61569310-61569319 chr10:61569304-61569322

No.	Distal block	Cell Line	Cell type
1	chr10:61568903..61569775-chr10:61807632..61808158,2	MCF-7	breast:
2	chr10:61385518..61386497-chr10:61568741..61570237,8	MCF-7	breast:
3	chr10:61385493..61386429-chr10:61568847..61570051,6	K562	blood:
4	chr10:61568113..61570689-chr10:61665672..61667670,4	K562	blood:
5	chr10:61385405..61386688-chr10:61568618..61569756,12	MCF-7	breast:

Variant related genes	Relation type
CCDC6	TF binding region
ENSG00000108091	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10821593	0.86[ASN][1000 genomes]
rs10994004	0.86[ASN][1000 genomes]
rs10994005	0.86[ASN][1000 genomes]
rs10994021	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10994022	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10994026	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10994027	1.00[CEU][hapmap];0.81[JPT][hapmap];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10994030	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs10994031	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1149660	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[EUR][1000 genomes]
rs1149663	0.93[EUR][1000 genomes]
rs11815103	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs11817729	0.93[ASN][1000 genomes]
rs12242758	0.91[ASN][1000 genomes]
rs12243559	0.86[ASN][1000 genomes]
rs12244844	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12252428	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12259529	0.84[YRI][hapmap]
rs12261734	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12267686	0.90[ASN][1000 genomes]
rs1684929	0.93[EUR][1000 genomes]
rs16914097	0.94[EUR][1000 genomes]
rs16914233	0.87[CHB][hapmap];0.80[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1709342	0.87[CHB][hapmap]
rs1709343	0.86[CHB][hapmap]
rs1949257	0.86[ASN][1000 genomes]
rs2120989	0.81[JPT][hapmap]
rs2120990	0.81[JPT][hapmap]
rs2271562	1.00[CEU][hapmap];0.86[CHB][hapmap];0.83[JPT][hapmap];0.93[EUR][1000 genomes]
rs2440926	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[EUR][1000 genomes]
rs2458664	0.93[EUR][1000 genomes]
rs3793878	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs3793882	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3851249	0.87[CEU][hapmap]
rs3999569	0.80[JPT][hapmap]
rs4948375	0.84[JPT][hapmap]
rs55706286	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55958518	0.95[ASN][1000 genomes]
rs56692362	0.95[ASN][1000 genomes]
rs57032269	0.99[EUR][1000 genomes]
rs57348988	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6479653	1.00[CEU][hapmap];0.87[CHB][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6479658	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6479661	0.81[JPT][hapmap]
rs68045193	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7078533	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs7079588	0.87[CHB][hapmap]
rs7080447	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7088755	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7092259	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72809579	0.89[EUR][1000 genomes]
rs72817923	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7901952	0.81[ASN][1000 genomes]
rs7910256	1.00[CEU][hapmap];0.87[CHB][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7916673	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7917071	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7920049	0.87[CHB][hapmap];0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs882896	0.86[ASN][1000 genomes]
rs9664183	0.81[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv975776	chr10:61569234-61574091	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61537600-61582800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:61548600-61573000	Strong transcription	Dnd41	blood
3	chr10:61549600-61572000	Strong transcription	Liver	Liver
4	chr10:61549600-61579600	Strong transcription	Primary B cells from cord blood	blood
5	chr10:61553000-61571000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr10:61554800-61571000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr10:61556000-61583800	Strong transcription	Primary B cells from peripheral blood	blood
8	chr10:61556200-61573800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:61556200-61573800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:61556200-61574800	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr10:61556200-61574800	Strong transcription	Primary T helper cells fromperipheralblood	blood
12	chr10:61556600-61573000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr10:61556800-61570400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr10:61556800-61574600	Strong transcription	Primary T cells from cord blood	blood
15	chr10:61557400-61573400	Strong transcription	Adipose Nuclei	Adipose
16	chr10:61557400-61574600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr10:61561000-61572800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr10:61561000-61574000	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr10:61561000-61574600	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr10:61561200-61571800	Strong transcription	HSMM	muscle
21	chr10:61561200-61574000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr10:61561200-61574600	Strong transcription	HepG2	liver
23	chr10:61561600-61572600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr10:61561600-61572800	Strong transcription	Osteobl	bone
25	chr10:61561600-61573600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr10:61561800-61571600	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr10:61562000-61573400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr10:61562200-61574600	Strong transcription	Fetal Thymus	thymus
29	chr10:61562400-61572600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr10:61562600-61571600	Strong transcription	GM12878-XiMat	blood
31	chr10:61562600-61573000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr10:61562600-61573400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr10:61562800-61571600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr10:61562800-61571600	Strong transcription	H9 Cell Line	embryonic stem cell
35	chr10:61562800-61571600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr10:61562800-61571600	Strong transcription	Sigmoid Colon	Sigmoid Colon
37	chr10:61562800-61571600	Strong transcription	Thymus	Thymus
38	chr10:61562800-61572400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr10:61562800-61572600	Strong transcription	Fetal Intestine Large	intestine
40	chr10:61562800-61572600	Strong transcription	HMEC	breast
41	chr10:61562800-61572800	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr10:61562800-61574200	Strong transcription	Placenta	Placenta
43	chr10:61562800-61574400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr10:61563000-61571000	Strong transcription	Fetal Intestine Small	intestine
45	chr10:61563000-61572800	Strong transcription	Fetal Muscle Trunk	muscle
46	chr10:61563200-61571600	Strong transcription	Fetal Muscle Leg	muscle
47	chr10:61563400-61571000	Strong transcription	NHEK	skin
48	chr10:61563600-61577600	Weak transcription	Right Atrium	heart
49	chr10:61564200-61576800	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr10:61564800-61570600	Weak transcription	HUVEC	blood vessel

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