Variant report

Variant	rs6962635
Chromosome Location	chr7:127688625-127688626
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:127672187..127674051-chr7:127688300..127690712,2	K562	blood:
2	chr7:127671221..127673486-chr7:127687426..127690797,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128594	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10254438	1.00[ASN][1000 genomes]
rs10269842	1.00[ASN][1000 genomes]
rs10447853	1.00[ASN][1000 genomes]
rs10447854	1.00[ASN][1000 genomes]
rs10447855	1.00[ASN][1000 genomes]
rs10487499	0.81[EUR][1000 genomes]
rs10487502	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12154492	0.82[EUR][1000 genomes]
rs12154534	1.00[ASN][1000 genomes]
rs12155421	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12375023	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12531847	0.80[AMR][1000 genomes]
rs12532894	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12533765	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12534062	1.00[ASN][1000 genomes]
rs12534918	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12537331	1.00[CHB][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs12706821	1.00[GIH][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap]
rs12706822	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12706823	0.82[EUR][1000 genomes]
rs13227201	0.82[EUR][1000 genomes]
rs1362898	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1419970	1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.90[YRI][hapmap];0.80[AMR][1000 genomes]
rs17151466	1.00[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap]
rs17151488	0.90[YRI][hapmap];0.80[AMR][1000 genomes]
rs17151507	1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.90[YRI][hapmap];0.80[AMR][1000 genomes]
rs17151639	0.83[CEU][hapmap];0.94[EUR][1000 genomes]
rs17151653	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17151668	1.00[ASW][hapmap];0.83[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17151682	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17151707	0.89[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.91[TSI][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17151739	1.00[CHB][hapmap];0.85[GIH][hapmap];0.93[MEX][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17662898	1.00[ASN][1000 genomes]
rs17676654	0.83[EUR][1000 genomes]
rs17679136	1.00[ASN][1000 genomes]
rs17679208	1.00[ASN][1000 genomes]
rs17732242	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17735893	1.00[ASN][1000 genomes]
rs17735958	1.00[ASN][1000 genomes]
rs28399051	1.00[ASN][1000 genomes]
rs28541365	1.00[ASN][1000 genomes]
rs28558944	1.00[ASN][1000 genomes]
rs28566925	1.00[ASN][1000 genomes]
rs28625157	1.00[ASN][1000 genomes]
rs28692983	1.00[ASN][1000 genomes]
rs35154268	0.80[AMR][1000 genomes]
rs41464647	1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap]
rs55660321	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56340588	1.00[ASN][1000 genomes]
rs58489175	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62484024	1.00[ASN][1000 genomes]
rs62484025	1.00[ASN][1000 genomes]
rs62484026	1.00[ASN][1000 genomes]
rs62484029	1.00[ASN][1000 genomes]
rs62484030	1.00[ASN][1000 genomes]
rs62484031	1.00[ASN][1000 genomes]
rs62484032	1.00[ASN][1000 genomes]
rs62484033	1.00[ASN][1000 genomes]
rs6467157	0.82[ASW][hapmap];0.85[GIH][hapmap];0.93[MEX][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes]
rs6948605	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6953231	0.94[CEU][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6965344	1.00[ASN][1000 genomes]
rs6975863	1.00[ASN][1000 genomes]
rs73226626	1.00[ASN][1000 genomes]
rs73232939	1.00[ASN][1000 genomes]
rs73232968	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73232972	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73238078	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73238088	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73239704	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73239710	1.00[ASN][1000 genomes]
rs741094	0.82[ASW][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7805021	1.00[ASW][hapmap];0.83[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7809182	0.85[GIH][hapmap];0.81[TSI][hapmap]
rs9649512	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	nsv1022385	chr7:127246656-127971194	Weak transcription Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv539120	chr7:127246656-127971194	Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv1016143	chr7:127251359-127726762	Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:127669400-127726600	Weak transcription	Hela-S3	cervix
2	chr7:127669600-127718200	Weak transcription	A549	lung
3	chr7:127670400-127698800	Weak transcription	Dnd41	blood
4	chr7:127672600-127695400	Weak transcription	Aorta	Aorta
5	chr7:127673000-127692600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr7:127673000-127692800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr7:127673000-127697800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr7:127673200-127692600	Weak transcription	Right Atrium	heart
9	chr7:127673200-127712000	Weak transcription	Esophagus	oesophagus
10	chr7:127673600-127692200	Weak transcription	Adipose Nuclei	Adipose
11	chr7:127673600-127692200	Weak transcription	Fetal Muscle Leg	muscle
12	chr7:127673600-127692200	Weak transcription	Gastric	stomach
13	chr7:127673800-127703400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr7:127673800-127715400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr7:127674600-127692200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr7:127675200-127692200	Weak transcription	Pancreas	Pancrea
17	chr7:127675200-127695200	Weak transcription	Psoas Muscle	Psoas
18	chr7:127675800-127692800	Weak transcription	Fetal Lung	lung
19	chr7:127678000-127701200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr7:127680000-127697600	Weak transcription	Thymus	Thymus
21	chr7:127680400-127698600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr7:127681000-127716200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr7:127681200-127693200	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr7:127681200-127718200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr7:127681600-127714600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr7:127682000-127692000	Weak transcription	HSMMtube	muscle
27	chr7:127682000-127695400	Weak transcription	NHLF	lung
28	chr7:127682200-127691200	Weak transcription	Rectal Smooth Muscle	rectum
29	chr7:127682600-127692200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr7:127682600-127693800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr7:127682800-127692200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr7:127682800-127692200	Weak transcription	Lung	lung
33	chr7:127682800-127692200	Weak transcription	Spleen	Spleen
34	chr7:127682800-127693800	Weak transcription	Fetal Stomach	stomach
35	chr7:127683000-127691800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr7:127683000-127696200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr7:127683000-127708800	Weak transcription	Duodenum Mucosa	Duodenum
38	chr7:127683200-127692400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr7:127683200-127692600	Weak transcription	Brain Anterior Caudate	brain
40	chr7:127683200-127693800	Weak transcription	Placenta	Placenta
41	chr7:127683200-127695200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr7:127683200-127696000	Weak transcription	Primary B cells from cord blood	blood
43	chr7:127683200-127700600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr7:127683400-127692400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr7:127684400-127691600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr7:127684400-127692200	Weak transcription	Left Ventricle	heart
47	chr7:127684400-127692400	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr7:127684400-127694200	Weak transcription	Fetal Intestine Large	intestine
49	chr7:127684400-127701400	Weak transcription	Fetal Muscle Trunk	muscle
50	chr7:127684600-127692200	Weak transcription	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links