Variant report

Variant	rs1873737
Chromosome Location	chr10:25304933-25304934
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	MAX	chr10:25304708-25306260	SK-N-SH	brain:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
2	CTCF	chr10:25304848-25305594	K562	blood:	n/a	n/a
3	RCOR1	chr10:25304825-25306221	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr10:25304869-25306829	IMR90	lung:	n/a	n/a
5	E2F6	chr10:25304899-25307215	H1-hESC	embryonic stem cell:	n/a	chr10:25306779-25306786 chr10:25305948-25305960 chr10:25306779-25306786 chr10:25306775-25306782 chr10:25306774-25306785 chr10:25306775-25306783 chr10:25306778-25306787 chr10:25306775-25306786 chr10:25306774-25306784 chr10:25305337-25305346 chr10:25306775-25306783 chr10:25306779-25306786
6	USF2	chr10:25304908-25306036	H1-hESC	embryonic stem cell:	n/a	chr10:25305504-25305513 chr10:25305505-25305514 chr10:25305503-25305514 chr10:25305506-25305515 chr10:25305499-25305520 chr10:25305505-25305514 chr10:25305959-25305975
7	RFX5	chr10:25304848-25305656	GM12878	blood:	n/a	chr10:25305105-25305119 chr10:25305089-25305106 chr10:25305104-25305120 chr10:25305090-25305105 chr10:25305090-25305105 chr10:25305105-25305118 chr10:25305090-25305105 chr10:25305087-25305102
8	MAX	chr10:25304887-25306476	MCF-7	breast:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
9	SIN3AK20	chr10:25304815-25306163	K562	blood:	n/a	n/a
10	MYBL2	chr10:25304854-25306380	HepG2	liver:	n/a	chr10:25305094-25305109 chr10:25305100-25305110
11	TEAD4	chr10:25304733-25306284	K562	blood:	n/a	n/a
12	WRNIP1	chr10:25304836-25305254	GM12878	blood:	n/a	n/a
13	MAX	chr10:25304834-25306386	H1-hESC	embryonic stem cell:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
14	MAX	chr10:25304907-25306354	Hela-S3	cervix:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
15	POLR2A	chr10:25304925-25304935	MCF-7	breast:	n/a	n/a
16	POLR2A	chr10:25304746-25306449	U87	brain:	n/a	n/a
17	MAZ	chr10:25304923-25306147	K562	blood:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
18	USF1	chr10:25304887-25306173	HCT-116	colon:	n/a	chr10:25305504-25305513 chr10:25305505-25305514 chr10:25305506-25305515 chr10:25305499-25305520 chr10:25305503-25305514 chr10:25305505-25305514 chr10:25305959-25305975
19	RCOR1	chr10:25304835-25306809	K562	blood:	n/a	n/a
20	RCOR1	chr10:25304915-25305906	GM12878	blood:	n/a	n/a
21	SIN3AK20	chr10:25304927-25305406	A549	lung:	n/a	n/a
22	MYC	chr10:25304763-25306448	MCF10A-Er-Src	breast:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
23	ZNF263	chr10:25304747-25306504	HEK293-T-REx	kidney:	n/a	chr10:25305450-25305459 chr10:25306296-25306305
24	GTF2F1	chr10:25304848-25306414	Hela-S3	cervix:	n/a	n/a
25	POLR2A	chr10:25304794-25306182	K562	blood:	n/a	n/a
26	TBP	chr10:25304893-25306325	HepG2	liver:	n/a	n/a
27	MYC	chr10:25304907-25306605	MCF10A-Er-Src	breast:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
28	MYC	chr10:25304826-25306503	K562	blood:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
29	ESR1	chr10:25304721-25305615	ECC-1	luminal epithelium:	n/a	n/a
30	EP300	chr10:25304795-25306324	A549	lung:	n/a	chr10:25305914-25305923
31	SIN3AK20	chr10:25304775-25305264	PANC-1	pancreas:	n/a	n/a
32	SMC3	chr10:25304928-25306467	HepG2	liver:	n/a	chr10:25305408-25305416
33	IRF1	chr10:25304919-25306509	K562	blood:	n/a	chr10:25305682-25305692 chr10:25305678-25305692 chr10:25305385-25305399 chr10:25305676-25305693 chr10:25305593-25305607
34	MAX	chr10:25304716-25306533	HCT-116	colon:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
35	CBX3	chr10:25304897-25306553	K562	blood:	n/a	n/a
36	POLR2A	chr10:25304809-25306357	H1-neurons	neurons:	n/a	n/a
37	MYC	chr10:25304507-25306456	A549	lung:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
38	POLR2A	chr10:25304899-25307365	K562	blood:	n/a	n/a
39	EGR1	chr10:25304892-25306322	HCT-116	colon:	n/a	chr10:25305920-25305930 chr10:25305589-25305602 chr10:25305589-25305603 chr10:25305979-25305986 chr10:25305591-25305601 chr10:25305589-25305602 chr10:25305592-25305601 chr10:25305592-25305602 chr10:25305590-25305604 chr10:25305589-25305602 chr10:25305589-25305602 chr10:25305588-25305603 chr10:25305381-25305394 chr10:25305922-25305936
40	POLR2A	chr10:25304886-25306374	HEK293	kidney:	n/a	n/a
41	HCFC1	chr10:25304883-25306284	K562	blood:	n/a	n/a
42	ESR1	chr10:25304695-25305444	ECC-1	luminal epithelium:	n/a	n/a
43	SIN3AK20	chr10:25304849-25305940	A549	lung:	n/a	n/a
44	BHLHE40	chr10:25304904-25306223	HepG2	liver:	n/a	chr10:25305504-25305513 chr10:25305505-25305514 chr10:25305506-25305515 chr10:25305499-25305520 chr10:25305505-25305514 chr10:25305959-25305975
45	MAX	chr10:25304727-25306564	A549	lung:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
46	SIN3AK20	chr10:25304732-25306518	MCF-7	breast:	n/a	n/a
47	EP300	chr10:25304915-25306467	GM12878	blood:	n/a	chr10:25305914-25305923
48	ELF1	chr10:25304874-25306113	MCF-7	breast:	n/a	chr10:25305950-25305962 chr10:25305114-25305127 chr10:25305592-25305604
49	SMC3	chr10:25304925-25305772	K562	blood:	n/a	chr10:25305408-25305416
50	RFX5	chr10:25304892-25306089	HepG2	liver:	n/a	chr10:25305105-25305119 chr10:25305089-25305106 chr10:25305104-25305120 chr10:25305090-25305105 chr10:25305090-25305105 chr10:25305105-25305118 chr10:25305090-25305105 chr10:25305087-25305102

No.	Distal block	Cell Line	Cell type
1	chr10:24926297..24929907-chr10:25304441..25307349,3	MCF-7	breast:
2	chr10:25010539..25015061-chr10:25304353..25309032,5	K562	blood:
3	chr10:25009784..25012218-chr10:25304353..25306747,3	K562	blood:
4	chr10:25008982..25015736-chr10:25303520..25307645,9	MCF-7	breast:
5	chr10:25011203..25013801-chr10:25304621..25307891,5	MCF-7	breast:
6	chr10:25239628..25245194-chr10:25304841..25307327,7	K562	blood:

Variant related genes	Relation type
ENKUR	TF binding region
THNSL1	TF binding region
ENSG00000273107	Chromatin interaction
ENSG00000107863	Chromatin interaction
ENSG00000199535	Chromatin interaction
ENSG00000099256	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10508681	1.00[EUR][1000 genomes]
rs11014322	1.00[EUR][1000 genomes]
rs11014406	1.00[EUR][1000 genomes]
rs12245315	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12246243	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12247487	1.00[EUR][1000 genomes]
rs12247642	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12249087	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12250135	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12251969	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12260419	1.00[EUR][1000 genomes]
rs12260489	1.00[EUR][1000 genomes]
rs12261956	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12265350	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925091	1.00[EUR][1000 genomes]
rs16925092	1.00[EUR][1000 genomes]
rs16925216	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16925349	1.00[EUR][1000 genomes]
rs16925389	1.00[EUR][1000 genomes]
rs16925393	1.00[EUR][1000 genomes]
rs1926053	1.00[EUR][1000 genomes]
rs2104488	1.00[EUR][1000 genomes]
rs28475481	1.00[EUR][1000 genomes]
rs4330994	1.00[EUR][1000 genomes]
rs56291772	1.00[EUR][1000 genomes]
rs56928079	1.00[EUR][1000 genomes]
rs57480457	1.00[EUR][1000 genomes]
rs57542069	1.00[EUR][1000 genomes]
rs7086600	1.00[EUR][1000 genomes]
rs7097598	1.00[EUR][1000 genomes]
rs73606579	1.00[EUR][1000 genomes]
rs74123298	1.00[EUR][1000 genomes]
rs74123299	1.00[EUR][1000 genomes]
rs74123300	1.00[EUR][1000 genomes]
rs7894458	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7916898	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]

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	esv3418576	chr10:25295995-25311122	Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25303000-25306400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr10:25303200-25306600	Active TSS	Brain Anterior Caudate	brain
3	chr10:25303400-25305600	Active TSS	Cortex derived primary cultured neurospheres	brain
4	chr10:25303800-25306200	Active TSS	Brain Germinal Matrix	brain
5	chr10:25303800-25306400	Active TSS	Brain Hippocampus Middle	brain
6	chr10:25303800-25306600	Active TSS	Brain Cingulate Gyrus	brain
7	chr10:25303800-25306600	Active TSS	Brain Inferior Temporal Lobe	brain
8	chr10:25304000-25307000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
9	chr10:25304200-25306400	Active TSS	Fetal Brain Male	brain
10	chr10:25304200-25306600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr10:25304400-25305000	Flanking Active TSS	HMEC	breast
12	chr10:25304400-25305200	Flanking Active TSS	Dnd41	blood
13	chr10:25304400-25306200	Active TSS	Brain Substantia Nigra	brain
14	chr10:25304400-25306200	Active TSS	K562	blood
15	chr10:25304400-25306600	Active TSS	Pancreatic Islets	Pancreatic Islet
16	chr10:25304600-25305000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr10:25304600-25305000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:25304600-25305000	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr10:25304600-25305000	Flanking Active TSS	Primary T cells from cord blood	blood
20	chr10:25304600-25305000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
21	chr10:25304600-25305000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
22	chr10:25304600-25305000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr10:25304600-25305000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr10:25304600-25305000	Flanking Active TSS	Duodenum Mucosa	Duodenum
25	chr10:25304600-25305000	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
26	chr10:25304600-25305000	Flanking Active TSS	Fetal Intestine Large	intestine
27	chr10:25304600-25305000	Flanking Active TSS	Fetal Intestine Small	intestine
28	chr10:25304600-25305000	Flanking Active TSS	Fetal Lung	lung
29	chr10:25304600-25305000	Flanking Active TSS	Fetal Muscle Leg	muscle
30	chr10:25304600-25305000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
31	chr10:25304600-25305000	Enhancers	Sigmoid Colon	Sigmoid Colon
32	chr10:25304600-25305000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr10:25304600-25305000	Flanking Active TSS	NHDF-Ad	bronchial
34	chr10:25304600-25305200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr10:25304600-25305200	Flanking Active TSS	Liver	Liver
36	chr10:25304600-25305200	Flanking Active TSS	Hela-S3	cervix
37	chr10:25304600-25305200	Flanking Active TSS	HUVEC	blood vessel
38	chr10:25304600-25305200	Flanking Active TSS	NHEK	skin
39	chr10:25304600-25306200	Active TSS	iPS-20b Cell Line	embryonic stem cell
40	chr10:25304600-25306200	Active TSS	Muscle Satellite Cultured Cells	--
41	chr10:25304600-25306200	Active TSS	Rectal Smooth Muscle	rectum
42	chr10:25304600-25306200	Active TSS	NH-A	brain
43	chr10:25304600-25306400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr10:25304600-25306400	Active TSS	Ovary	ovary
45	chr10:25304600-25306400	Active TSS	NHLF	lung
46	chr10:25304600-25306600	Active TSS	HUES48 Cell Line	embryonic stem cell
47	chr10:25304600-25306600	Active TSS	Breast Myoepithelial Primary Cells	Breast
48	chr10:25304600-25306600	Flanking Active TSS	Primary B cells from cord blood	blood
49	chr10:25304600-25306600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr10:25304600-25306600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin

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