Variant report

Variant	rs1033976
Chromosome Location	chr10:94639960-94639961
allele	G/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	RAD21	chr10:94639946-94640492	Hela-S3	cervix:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
2	RAD21	chr10:94639919-94640367	MCF-7	breast:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
3	CTCF	chr10:94639742-94640595	SK-N-SH	brain:	n/a	chr10:94640214-94640235 chr10:94640224-94640232 chr10:94640219-94640237
4	RAD21	chr10:94639882-94640465	HepG2	liver:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
5	RAD21	chr10:94639862-94640518	HCT-116	colon:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
6	CTCF	chr10:94639778-94640599	A549	lung:	n/a	chr10:94640214-94640235 chr10:94640224-94640232 chr10:94640219-94640237
7	RAD21	chr10:94639744-94640965	SK-N-SH	brain:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
8	RAD21	chr10:94639944-94640418	ECC-1	luminal epithelium:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
9	RAD21	chr10:94639948-94640512	A549	lung:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
10	CTCF	chr10:94639928-94640483	MCF-7	breast:	n/a	chr10:94640214-94640235 chr10:94640224-94640232 chr10:94640219-94640237
11	CTCF	chr10:94639875-94640427	IMR90	lung:	n/a	chr10:94640214-94640235 chr10:94640224-94640232 chr10:94640219-94640237
12	RAD21	chr10:94639947-94640490	ECC-1	luminal epithelium:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
13	CEBPB	chr10:94639782-94640013	IMR90	lung:	n/a	n/a
14	RAD21	chr10:94639922-94640423	MCF-7	breast:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
15	RAD21	chr10:94639953-94640312	SK-N-SH_RA	brain:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
16	RAD21	chr10:94639889-94640475	A549	lung:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236
17	CTCF	chr10:94639956-94640337	HepG2	liver:	n/a	chr10:94640214-94640235 chr10:94640224-94640232 chr10:94640219-94640237
18	SMC3	chr10:94639769-94640673	SK-N-SH	brain:	n/a	chr10:94640221-94640235
19	CTCF	chr10:94639933-94640593	HCT-116	colon:	n/a	chr10:94640214-94640235 chr10:94640224-94640232 chr10:94640219-94640237
20	RAD21	chr10:94639942-94640549	HCT-116	colon:	n/a	chr10:94640220-94640233 chr10:94640223-94640232 chr10:94640217-94640236

No.	Distal block	Cell Line	Cell type
1	chr10:94602547..94603439-chr10:94639714..94640841,5	MCF-7	breast:
2	chr10:94515577..94518061-chr10:94639001..94640568,2	K562	blood:
3	chr10:94582543..94583333-chr10:94639532..94640277,3	MCF-7	breast:
4	chr10:94639799..94640373-chr19:41475219..41475719,2	K562	blood:
5	chr10:94607070..94611530-chr10:94637347..94641279,5	MCF-7	breast:
6	chr10:94602628..94603467-chr10:94639636..94640258,2	K562	blood:
7	chr10:94633905..94635753-chr10:94639466..94642553,3	K562	blood:

Variant related genes	Relation type
ENSG00000225118	TF binding region
ENSG00000138190	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10466167	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736071	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736072	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10748586	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786057	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187183	0.86[EUR][1000 genomes]
rs1326329	0.82[EUR][1000 genomes]
rs1326331	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1326332	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1536329	0.81[EUR][1000 genomes]
rs1960367	0.88[AMR][1000 genomes]
rs2025730	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2094232	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2148361	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2182451	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246370	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246382	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246701	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2250393	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2422070	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2422072	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2488062	1.00[ASN][1000 genomes]
rs2490732	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490733	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490740	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490742	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490744	1.00[ASN][1000 genomes]
rs2497322	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497323	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497324	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497326	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497327	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497331	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497339	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497348	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497350	1.00[ASN][1000 genomes]
rs4517429	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933241	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933242	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933749	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933752	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6583846	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6583848	0.83[EUR][1000 genomes]
rs7069070	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7070025	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7078376	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082382	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7089179	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7477130	0.82[EUR][1000 genomes]
rs7893270	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7894145	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7897839	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7909191	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909581	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7913340	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7914859	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835250	0.82[EUR][1000 genomes]
rs860668	0.82[EUR][1000 genomes]
rs9419746	1.00[ASN][1000 genomes]
rs9633695	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs973733	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs980204	0.82[AMR][1000 genomes];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	nsv1041805	chr10:94624759-94699623	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv895898	chr10:94628274-94810665	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1039122	chr10:94636267-94693706	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94620000-94657600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:94624400-94646000	Weak transcription	Fetal Intestine Small	intestine
3	chr10:94633200-94640000	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr10:94633200-94640200	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr10:94633400-94656600	Weak transcription	Primary B cells from cord blood	blood
6	chr10:94634800-94650400	Weak transcription	Psoas Muscle	Psoas
7	chr10:94636000-94641000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr10:94636800-94640200	Enhancers	HUVEC	blood vessel
9	chr10:94637200-94651800	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr10:94637400-94640000	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr10:94638200-94640000	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr10:94638200-94640000	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr10:94638400-94640200	Weak transcription	Primary hematopoietic stem cells	blood
14	chr10:94638400-94652000	Weak transcription	Right Atrium	heart
15	chr10:94638600-94640000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr10:94638600-94640000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr10:94638600-94641400	Weak transcription	K562	blood
18	chr10:94638600-94656800	Weak transcription	Primary T cells from cord blood	blood
19	chr10:94639200-94640200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr10:94639200-94640400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr10:94639800-94640000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr10:94639800-94640200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr10:94639800-94640200	Enhancers	Brain Angular Gyrus	brain
24	chr10:94639800-94640200	Enhancers	Stomach Smooth Muscle	stomach
25	chr10:94639800-94640600	Enhancers	A549	lung
26	chr10:94639800-94641200	Enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links