Variant report

Variant	rs851025
Chromosome Location	chr6:35999239-35999240
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35998756..36001423-chr6:36089010..36091186,2	MCF-7	breast:
2	chr6:35998987..36001694-chr6:36072794..36074900,2	MCF-7	breast:
3	chr6:35991723..36001946-chr6:36059635..36067870,13	K562	blood:
4	chr6:35994420..35996141-chr6:35998838..36000646,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112062	Chromatin interaction
ENSG00000237719	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1100856	0.82[EUR][1000 genomes]
rs1100857	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1100859	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1100860	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2815806	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6457879	0.93[EUR][1000 genomes]
rs707994	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs851004	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs851008	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs851009	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs851011	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs851012	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs851015	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs851016	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs851021	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs851022	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs851023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs916344	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs916345	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv528432	chr6:35958871-36035354	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35996800-36001200	Weak transcription	Esophagus	oesophagus
2	chr6:35996800-36001200	Weak transcription	Gastric	stomach
3	chr6:35997200-35999400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:35997200-36000200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:35997200-36000400	Enhancers	Primary B cells from peripheral blood	blood
6	chr6:35997400-35999400	Weak transcription	Fetal Heart	heart
7	chr6:35997400-36002400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
8	chr6:35997400-36002400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:35997400-36004000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:35997600-35999400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr6:35997600-36000000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:35997600-36000000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr6:35997600-36000200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:35997600-36000200	Weak transcription	Brain Angular Gyrus	brain
15	chr6:35997600-36000200	Weak transcription	Brain Substantia Nigra	brain
16	chr6:35997600-36000200	Weak transcription	Fetal Kidney	kidney
17	chr6:35997600-36001400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr6:35997600-36001400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr6:35997600-36001400	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:35997600-36001400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr6:35997600-36001400	Weak transcription	Ovary	ovary
22	chr6:35997600-36001800	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:35997600-36002000	Enhancers	Primary T cells fromperipheralblood	blood
24	chr6:35997600-36002800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
25	chr6:35997600-36003200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr6:35997600-36004200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
27	chr6:35997600-36005400	Weak transcription	Aorta	Aorta
28	chr6:35997600-36005400	Weak transcription	Left Ventricle	heart
29	chr6:35997600-36008800	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr6:35997600-36010800	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr6:35997600-36021800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr6:35997800-35999400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
33	chr6:35997800-35999600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:35997800-36001400	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr6:35997800-36001400	Weak transcription	Right Atrium	heart
36	chr6:35998000-35999400	Weak transcription	Fetal Intestine Large	intestine
37	chr6:35998000-35999600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
38	chr6:35998000-36000000	Enhancers	Duodenum Mucosa	Duodenum
39	chr6:35998000-36000200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:35998000-36000200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr6:35998000-36000200	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr6:35998000-36000200	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr6:35998000-36001200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr6:35998000-36001600	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr6:35998000-36001600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr6:35998000-36001600	Weak transcription	A549	lung
47	chr6:35998000-36001800	Weak transcription	NH-A	brain
48	chr6:35998000-36003200	Weak transcription	Right Ventricle	heart
49	chr6:35998000-36003800	Enhancers	Colon Smooth Muscle	Colon
50	chr6:35998000-36004400	Enhancers	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links