Variant report

Variant	rs13210701
Chromosome Location	chr6:37833897-37833898
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37785357..37787655-chr6:37832956..37835943,2	K562	blood:
2	chr6:37831095..37834657-chr6:37839870..37842931,3	MCF-7	breast:
3	chr6:37827459..37830301-chr6:37832209..37835878,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000225945	Chromatin interaction
ENSG00000156639	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10456096	0.93[CEU][hapmap];0.88[CHB][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10456097	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10807188	0.89[EUR][1000 genomes]
rs1187421	0.85[CEU][hapmap];0.89[CHB][hapmap]
rs1187422	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1187423	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190570	0.89[CHB][hapmap]
rs12192182	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12198907	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12200258	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206818	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211248	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12213835	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13214465	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16890277	0.81[ASN][1000 genomes]
rs171831	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1812599	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2055206	0.85[CEU][hapmap]
rs2132597	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2395686	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs259673	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259679	0.80[CEU][hapmap];0.89[CHB][hapmap]
rs259684	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs259686	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259690	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259691	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259695	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259713	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259715	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259716	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs259718	0.80[CEU][hapmap];0.89[CHB][hapmap]
rs2645102	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs2645107	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2645113	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2645116	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2645117	0.89[CHB][hapmap]
rs2645120	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2645124	0.86[CHB][hapmap]
rs2645127	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2645128	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2645131	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap]
rs2645134	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs2842500	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2842517	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842527	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2842529	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34592529	0.89[AFR][1000 genomes]
rs34871463	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35823566	0.84[ASN][1000 genomes]
rs35925070	0.95[AFR][1000 genomes]
rs56098839	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6458027	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6458028	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6458029	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[EUR][1000 genomes]
rs6941057	0.81[CEU][hapmap]
rs7755089	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9296232	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[EUR][1000 genomes]
rs9394460	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[EUR][1000 genomes]
rs9647619	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs966705	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1016375	chr6:37816863-37865655	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv538204	chr6:37816863-37865655	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37800200-37836200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:37802600-37834400	Weak transcription	Duodenum Mucosa	Duodenum
3	chr6:37808000-37839000	Weak transcription	Fetal Stomach	stomach
4	chr6:37812600-37836000	Weak transcription	Fetal Intestine Small	intestine
5	chr6:37813600-37845200	Weak transcription	K562	blood
6	chr6:37814000-37835400	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr6:37818400-37836000	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:37820000-37834600	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:37820000-37835400	Weak transcription	Fetal Heart	heart
10	chr6:37820000-37850200	Weak transcription	Fetal Kidney	kidney
11	chr6:37820400-37836000	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:37824000-37842000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:37824400-37836200	Weak transcription	Fetal Intestine Large	intestine
14	chr6:37826200-37834400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr6:37826200-37834600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:37826400-37834600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:37826400-37835000	Weak transcription	HUVEC	blood vessel
18	chr6:37826800-37836200	Weak transcription	Stomach Smooth Muscle	stomach
19	chr6:37827200-37834200	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr6:37827600-37834400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr6:37827600-37834400	Weak transcription	Stomach Mucosa	stomach
22	chr6:37828400-37834400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:37828600-37835400	Weak transcription	Brain Germinal Matrix	brain
24	chr6:37828800-37835000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:37829000-37837800	Weak transcription	Dnd41	blood
26	chr6:37829200-37834600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:37830600-37834600	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr6:37830600-37834600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:37831000-37834400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr6:37831000-37834600	Weak transcription	Ovary	ovary
31	chr6:37831000-37836000	Weak transcription	Hela-S3	cervix
32	chr6:37831000-37836200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr6:37831000-37846000	Weak transcription	Esophagus	oesophagus
34	chr6:37831200-37834400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr6:37831200-37837000	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr6:37831200-37839600	Weak transcription	Fetal Lung	lung
37	chr6:37831400-37834600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr6:37831400-37834600	Weak transcription	Colon Smooth Muscle	Colon
39	chr6:37831400-37836000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:37831600-37834600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr6:37831600-37836600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr6:37831800-37834000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:37831800-37834400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:37831800-37834400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr6:37831800-37834400	Weak transcription	NHDF-Ad	bronchial
46	chr6:37831800-37834800	Weak transcription	Liver	Liver
47	chr6:37831800-37835400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:37831800-37836400	Enhancers	Primary hematopoietic stem cells short term culture	blood
49	chr6:37832000-37835400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
50	chr6:37832000-37836000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links