Variant report

Variant	rs34459886
Chromosome Location	chr7:108145983-108145984
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:108141263..108144048-chr7:108145824..108147368,2	K562	blood:
2	chr7:108143447..108146507-chr7:108154602..108157266,3	MCF-7	breast:
3	chr7:108140209..108142096-chr7:108144749..108147683,2	MCF-7	breast:
4	chr7:108143422..108146244-chr7:108213317..108215644,2	K562	blood:

Variant related genes	Relation type
ENSG00000135241	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11971386	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11983802	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11983842	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12530879	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12538539	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12540029	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12705474	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13239792	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16872576	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16872577	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34164886	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34771129	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34827770	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34915298	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34959248	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35220845	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35444439	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3752639	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3763460	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3763463	0.91[EUR][1000 genomes]
rs60117684	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6964631	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6980319	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71568523	0.89[EUR][1000 genomes]
rs71568529	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71568531	0.92[ASN][1000 genomes]
rs71568533	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7786180	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9641410	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]

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	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
2	nsv981569	chr7:108143507-108152160	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:108102800-108158400	Weak transcription	HSMMtube	muscle
2	chr7:108105800-108158000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr7:108106200-108150800	Weak transcription	NHLF	lung
4	chr7:108109000-108162400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr7:108111400-108154800	Weak transcription	NHEK	skin
6	chr7:108113200-108157000	Weak transcription	Psoas Muscle	Psoas
7	chr7:108113800-108150800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr7:108113800-108165800	Weak transcription	Gastric	stomach
9	chr7:108114000-108165000	Weak transcription	Colonic Mucosa	Colon
10	chr7:108114400-108160000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr7:108115200-108151800	Weak transcription	NHDF-Ad	bronchial
12	chr7:108117200-108150600	Weak transcription	Colon Smooth Muscle	Colon
13	chr7:108117200-108151800	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr7:108117800-108164200	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr7:108119200-108157600	Weak transcription	Brain Germinal Matrix	brain
16	chr7:108119800-108151000	Weak transcription	Fetal Kidney	kidney
17	chr7:108119800-108151800	Weak transcription	Thymus	Thymus
18	chr7:108119800-108151800	Weak transcription	HMEC	breast
19	chr7:108119800-108154800	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr7:108119800-108158200	Weak transcription	Aorta	Aorta
21	chr7:108121600-108158200	Weak transcription	Rectal Smooth Muscle	rectum
22	chr7:108128200-108158000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr7:108130000-108165000	Weak transcription	Pancreas	Pancrea
24	chr7:108130200-108162000	Weak transcription	Hela-S3	cervix
25	chr7:108130800-108165000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr7:108132400-108151000	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr7:108132800-108158400	Weak transcription	A549	lung
28	chr7:108133600-108154800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr7:108133600-108155600	Weak transcription	Fetal Heart	heart
30	chr7:108135200-108158000	Weak transcription	Right Ventricle	heart
31	chr7:108135600-108151800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr7:108136000-108163000	Weak transcription	HepG2	liver
33	chr7:108137200-108158200	Weak transcription	NH-A	brain
34	chr7:108137600-108150600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr7:108138000-108154600	Weak transcription	K562	blood
36	chr7:108140200-108151000	Weak transcription	Brain Cingulate Gyrus	brain
37	chr7:108140600-108157600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr7:108140800-108154400	Weak transcription	HUVEC	blood vessel
39	chr7:108140800-108157600	Weak transcription	Brain Substantia Nigra	brain
40	chr7:108141200-108158200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr7:108141400-108147400	Weak transcription	Fetal Intestine Small	intestine
42	chr7:108141400-108165000	Weak transcription	Spleen	Spleen
43	chr7:108141600-108150600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr7:108141800-108151600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr7:108142000-108146200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr7:108142000-108146400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr7:108142000-108147000	Weak transcription	Primary hematopoietic stem cells	blood
48	chr7:108142000-108150600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr7:108142000-108151400	Weak transcription	HSMM	muscle
50	chr7:108142000-108151600	Weak transcription	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links