Variant report

Variant	rs2322216
Chromosome Location	chr6:79923664-79923665
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:79922096..79924489-chr6:79928328..79930333,2	K562	blood:
2	chr6:79922512..79924677-chr6:79941315..79943922,2	MCF-7	breast:
3	chr6:79917961..79920649-chr6:79922906..79925816,3	K562	blood:

Variant related genes	Relation type
ENSG00000270362	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10455359	0.92[EUR][1000 genomes]
rs10806163	0.94[EUR][1000 genomes]
rs11965180	0.89[EUR][1000 genomes]
rs11966786	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11969279	0.89[EUR][1000 genomes]
rs12194892	0.94[EUR][1000 genomes]
rs12209677	0.94[EUR][1000 genomes]
rs1335535	1.00[CEU][hapmap];0.91[YRI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1335537	1.00[CEU][hapmap];0.82[YRI][hapmap];0.92[EUR][1000 genomes]
rs1335538	1.00[CEU][hapmap];0.88[YRI][hapmap];0.92[EUR][1000 genomes]
rs1414279	0.94[EUR][1000 genomes]
rs1414283	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1414284	0.92[EUR][1000 genomes]
rs1537739	0.89[EUR][1000 genomes]
rs1537740	1.00[CEU][hapmap];0.87[YRI][hapmap];0.92[EUR][1000 genomes]
rs1582079	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16890450	0.94[EUR][1000 genomes]
rs1832088	0.92[EUR][1000 genomes]
rs1832089	0.92[EUR][1000 genomes]
rs1889685	0.89[EUR][1000 genomes]
rs2095633	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2322219	0.89[EUR][1000 genomes]
rs2874732	0.92[EUR][1000 genomes]
rs2874733	0.92[EUR][1000 genomes]
rs3934335	0.92[EUR][1000 genomes]
rs4112504	0.92[EUR][1000 genomes]
rs4235810	0.89[EUR][1000 genomes]
rs4301272	0.89[EUR][1000 genomes]
rs4377755	0.92[EUR][1000 genomes]
rs4407672	0.92[EUR][1000 genomes]
rs4418150	0.85[CEU][hapmap];0.89[EUR][1000 genomes]
rs4432946	0.89[EUR][1000 genomes]
rs4464749	0.92[EUR][1000 genomes]
rs4470813	0.92[EUR][1000 genomes]
rs4537102	0.89[EUR][1000 genomes]
rs4555887	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs4706754	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4706755	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4706756	1.00[CEU][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4706759	1.00[CEU][hapmap];0.88[YRI][hapmap];0.82[EUR][1000 genomes]
rs4706760	1.00[CEU][hapmap];0.87[YRI][hapmap];0.92[EUR][1000 genomes]
rs4706765	1.00[CEU][hapmap];0.88[YRI][hapmap];0.92[EUR][1000 genomes]
rs4706766	0.92[EUR][1000 genomes]
rs55635444	0.92[EUR][1000 genomes]
rs56183421	0.89[EUR][1000 genomes]
rs56193084	0.94[EUR][1000 genomes]
rs56354335	0.94[EUR][1000 genomes]
rs56955811	0.94[EUR][1000 genomes]
rs57340384	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs57608966	0.94[EUR][1000 genomes]
rs59152048	0.92[EUR][1000 genomes]
rs59858042	0.92[EUR][1000 genomes]
rs61227507	0.92[EUR][1000 genomes]
rs61558200	0.94[EUR][1000 genomes]
rs62411290	0.92[EUR][1000 genomes]
rs6454106	0.92[EUR][1000 genomes]
rs6907042	0.92[EUR][1000 genomes]
rs6907264	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6913297	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs6917165	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6924790	0.92[EUR][1000 genomes]
rs6929660	0.89[EUR][1000 genomes]
rs6941433	0.92[EUR][1000 genomes]
rs73468020	0.97[EUR][1000 genomes]
rs73468035	0.94[EUR][1000 genomes]
rs73767530	0.94[EUR][1000 genomes]
rs7738508	0.92[EUR][1000 genomes]
rs7739118	0.89[EUR][1000 genomes]
rs7746915	0.92[EUR][1000 genomes]
rs7751974	1.00[CEU][hapmap];0.92[YRI][hapmap];0.92[EUR][1000 genomes]
rs7752593	1.00[CEU][hapmap];0.88[YRI][hapmap];0.92[EUR][1000 genomes]
rs7757062	0.89[EUR][1000 genomes]
rs7760458	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7760939	0.89[EUR][1000 genomes]
rs7763232	0.92[EUR][1000 genomes]
rs7764517	0.92[EUR][1000 genomes]
rs7770245	0.92[EUR][1000 genomes]
rs7772967	0.92[EUR][1000 genomes]
rs9343886	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9343890	0.87[EUR][1000 genomes]
rs9350803	1.00[CEU][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9352710	0.92[EUR][1000 genomes]
rs9359369	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9361504	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9361511	0.92[EUR][1000 genomes]
rs9443654	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs989191	0.84[YRI][hapmap]

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	nsv830706	chr6:79825910-79994878	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79883000-79925000	Weak transcription	Pancreas	Pancrea
2	chr6:79899200-79924800	Weak transcription	Psoas Muscle	Psoas
3	chr6:79899800-79924400	Weak transcription	Brain Anterior Caudate	brain
4	chr6:79901200-79927000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:79904200-79925000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:79906800-79935600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:79907000-79924800	Weak transcription	NH-A	brain
8	chr6:79907200-79926000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:79907400-79942800	Weak transcription	HSMM	muscle
10	chr6:79907600-79924400	Weak transcription	Colon Smooth Muscle	Colon
11	chr6:79907600-79940800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:79908400-79924800	Weak transcription	Fetal Heart	heart
13	chr6:79908400-79938600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:79910200-79924400	Weak transcription	Brain Angular Gyrus	brain
15	chr6:79910200-79925000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr6:79910800-79924600	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr6:79910800-79935600	Weak transcription	NHEK	skin
18	chr6:79911000-79928800	Weak transcription	Brain Substantia Nigra	brain
19	chr6:79912200-79924800	Weak transcription	Small Intestine	intestine
20	chr6:79912400-79940600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr6:79912600-79925000	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:79912600-79927600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr6:79912600-79931000	Weak transcription	Rectal Smooth Muscle	rectum
24	chr6:79912800-79924800	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr6:79912800-79926600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:79912800-79942600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr6:79913200-79926400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr6:79913200-79943000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:79913200-79943200	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr6:79913800-79924800	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr6:79914000-79924800	Weak transcription	HepG2	liver
32	chr6:79914200-79923800	Weak transcription	Fetal Brain Female	brain
33	chr6:79916400-79925200	Weak transcription	HMEC	breast
34	chr6:79916400-79930400	Weak transcription	Brain Germinal Matrix	brain
35	chr6:79916400-79935400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr6:79916400-79943200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr6:79916600-79925000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:79916600-79925200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr6:79916600-79927600	Weak transcription	Esophagus	oesophagus
40	chr6:79916600-79933000	Weak transcription	Spleen	Spleen
41	chr6:79916800-79924800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr6:79916800-79925000	Weak transcription	Lung	lung
43	chr6:79916800-79927600	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr6:79917400-79924400	Weak transcription	Fetal Intestine Small	intestine
45	chr6:79917600-79924800	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr6:79917800-79924800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr6:79917800-79924800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr6:79917800-79929200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr6:79917800-79929600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr6:79917800-79941000	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links