Variant report

Variant	rs6953987
Chromosome Location	chr7:129293978-129293979
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	chr7:129293462..129296171-chr7:129296988..129299418,3	K562	blood:
2	chr7:129249680..129253183-chr7:129292081..129295139,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106459	Chromatin interaction
ENSG00000273329	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10954245	0.88[ASN][1000 genomes]
rs10954248	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10954251	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11570363	0.88[ASN][1000 genomes]
rs11760589	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11761434	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11769146	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11773023	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11975979	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12154342	0.82[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12154677	0.83[ASN][1000 genomes]
rs13225629	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13226276	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13230677	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13231538	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13236221	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13239011	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13244638	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17556221	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17556430	0.96[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1962038	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1984823	0.85[GIH][hapmap]
rs2293629	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2402967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2402975	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34498715	0.88[ASN][1000 genomes]
rs36017781	0.83[EUR][1000 genomes]
rs36033773	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36083190	0.88[ASN][1000 genomes]
rs3736626	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3800599	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4440554	0.96[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4728175	0.82[GIH][hapmap]
rs6959550	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6965820	0.83[AFR][1000 genomes]
rs6975927	0.88[ASN][1000 genomes]
rs6976516	0.88[ASN][1000 genomes]
rs6978476	0.83[AFR][1000 genomes]
rs73159640	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9649538	0.88[CHB][hapmap];1.00[JPT][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6953987	UBE2H	cis	cerebellum	SCAN
rs6953987	FAM71F1	cis	parietal	SCAN

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:129253000-129297200	Weak transcription	Lung	lung
2	chr7:129253800-129297200	Weak transcription	Fetal Stomach	stomach
3	chr7:129257800-129297000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr7:129257800-129297000	Weak transcription	Fetal Intestine Large	intestine
5	chr7:129257800-129297200	Weak transcription	Aorta	Aorta
6	chr7:129259000-129296800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr7:129260200-129297200	Weak transcription	Fetal Intestine Small	intestine
8	chr7:129262800-129297000	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr7:129265200-129297200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr7:129273400-129297000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr7:129275600-129297000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr7:129275600-129297200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr7:129275600-129297200	Weak transcription	HepG2	liver
14	chr7:129277000-129297200	Weak transcription	Colon Smooth Muscle	Colon
15	chr7:129278400-129297000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr7:129278800-129295400	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr7:129279200-129296800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr7:129280600-129297000	Weak transcription	Duodenum Mucosa	Duodenum
19	chr7:129281000-129297200	Weak transcription	Adipose Nuclei	Adipose
20	chr7:129282800-129297400	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr7:129283400-129297200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr7:129283600-129297200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr7:129283600-129297200	Weak transcription	Gastric	stomach
24	chr7:129283800-129296800	Weak transcription	Dnd41	blood
25	chr7:129283800-129297200	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr7:129283800-129331600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr7:129284000-129297200	Weak transcription	Ovary	ovary
28	chr7:129284000-129297200	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr7:129284000-129297200	Weak transcription	NHDF-Ad	bronchial
30	chr7:129284000-129297400	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr7:129284000-129297600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr7:129284200-129297000	Weak transcription	Placenta	Placenta
33	chr7:129284600-129295600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr7:129284600-129296800	Weak transcription	HMEC	breast
35	chr7:129284600-129297200	Weak transcription	Brain Cingulate Gyrus	brain
36	chr7:129284600-129297200	Weak transcription	HUVEC	blood vessel
37	chr7:129284600-129298200	Weak transcription	Brain Hippocampus Middle	brain
38	chr7:129285200-129297200	Weak transcription	Esophagus	oesophagus
39	chr7:129285400-129297400	Weak transcription	Brain Germinal Matrix	brain
40	chr7:129286600-129297600	Weak transcription	A549	lung
41	chr7:129286600-129299400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr7:129286600-129301600	Weak transcription	HSMMtube	muscle
43	chr7:129286800-129297000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr7:129286800-129297000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr7:129286800-129297000	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr7:129286800-129297200	Weak transcription	Fetal Muscle Leg	muscle
47	chr7:129286800-129297200	Weak transcription	Right Ventricle	heart
48	chr7:129286800-129297200	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr7:129286800-129297200	Weak transcription	Hela-S3	cervix
50	chr7:129286800-129297600	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links