Variant report

Variant	rs1409329
Chromosome Location	chr10:6189366-6189367
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6183938..6190482-chr10:6242008..6247032,17	MCF-7	breast:
2	chr10:6188903..6191152-chr10:6204778..6206877,2	MCF-7	breast:
3	chr10:6149255..6151858-chr10:6188263..6190070,3	K562	blood:
4	chr10:6148307..6150480-chr10:6188512..6190404,2	MCF-7	breast:
5	chr10:6130589..6132639-chr10:6184439..6189476,5	K562	blood:

Variant related genes	Relation type
ENSG00000134453	Chromatin interaction
ENSG00000213994	Chromatin interaction
ENSG00000170525	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12719919	1.00[CEU][hapmap]
rs1409328	0.87[YRI][hapmap]
rs4237413	0.86[YRI][hapmap]
rs4750023	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34061	chr10:5726821-6225187	Enhancers Weak transcription 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 lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv1040721	chr10:6155144-6322566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv540476	chr10:6155144-6322566	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv894816	chr10:6173416-6190343	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv894817	chr10:6173416-6251252	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6186400-6189400	Bivalent Enhancer	Fetal Brain Male	brain
2	chr10:6186400-6190800	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
3	chr10:6187800-6190800	Weak transcription	NHEK	skin
4	chr10:6188000-6190400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:6188000-6190600	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr10:6188000-6190800	Enhancers	Small Intestine	intestine
7	chr10:6188000-6193200	Weak transcription	Osteobl	bone
8	chr10:6188200-6190000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr10:6188200-6193200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:6188200-6193200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr10:6188400-6190000	Weak transcription	Primary B cells from peripheral blood	blood
12	chr10:6188400-6190000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr10:6188400-6190000	Weak transcription	Esophagus	oesophagus
14	chr10:6188400-6190000	Weak transcription	Right Atrium	heart
15	chr10:6188400-6190000	Weak transcription	HMEC	breast
16	chr10:6188400-6190000	Weak transcription	K562	blood
17	chr10:6188400-6190200	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr10:6188400-6190400	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr10:6188400-6190600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr10:6188400-6190600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
21	chr10:6188400-6191000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
22	chr10:6188400-6191200	Enhancers	Primary B cells from cord blood	blood
23	chr10:6188400-6192800	Weak transcription	Fetal Heart	heart
24	chr10:6188400-6192800	Weak transcription	Ovary	ovary
25	chr10:6188400-6193000	Weak transcription	Brain Substantia Nigra	brain
26	chr10:6188400-6193000	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr10:6188400-6193000	Weak transcription	HUVEC	blood vessel
28	chr10:6188400-6193200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr10:6188400-6193200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr10:6188400-6193200	Weak transcription	A549	lung
31	chr10:6188400-6204000	Weak transcription	HSMMtube	muscle
32	chr10:6188400-6225200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr10:6188600-6189400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr10:6188600-6189400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr10:6188600-6189400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr10:6188600-6189400	Weak transcription	Fetal Muscle Leg	muscle
37	chr10:6188600-6189600	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr10:6188600-6189600	Enhancers	Spleen	Spleen
39	chr10:6188600-6189800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr10:6188600-6189800	Weak transcription	HSMM	muscle
41	chr10:6188600-6190000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr10:6188600-6190000	Enhancers	Primary T cells from cord blood	blood
43	chr10:6188600-6190000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr10:6188600-6190000	Weak transcription	Fetal Thymus	thymus
45	chr10:6188600-6190000	Weak transcription	Psoas Muscle	Psoas
46	chr10:6188600-6190000	Weak transcription	Stomach Mucosa	stomach
47	chr10:6188600-6190000	Weak transcription	NH-A	brain
48	chr10:6188600-6190200	Enhancers	Adipose Nuclei	Adipose
49	chr10:6188600-6191200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr10:6188600-6192800	Weak transcription	Brain Cingulate Gyrus	brain

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