Variant report

Variant	rs71605691
Chromosome Location	chr4:87813432-87813433
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:87515391..87517685-chr4:87812251..87815383,4	MCF-7	breast:
2	chr4:87514124..87517809-chr4:87811943..87814768,5	MCF-7	breast:
3	chr12:6832818..6833441-chr4:87812969..87813889,2	HCT-116	colon:
4	chr4:87812859..87813560-chr4:177116539..177117352,2	HCT-116	colon:

Variant related genes	Relation type
ENSG00000163629	Chromatin interaction
ENSG00000150628	Chromatin interaction
ENSG00000111652	Chromatin interaction
ENSG00000109339	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10029698	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10034541	0.94[EUR][1000 genomes]
rs1075989	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12186239	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13103212	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13114907	0.87[EUR][1000 genomes]
rs13117826	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13131035	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13131194	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13134746	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13143520	0.93[EUR][1000 genomes]
rs13147739	0.83[EUR][1000 genomes]
rs13147942	0.93[EUR][1000 genomes]
rs13151671	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13151797	0.93[EUR][1000 genomes]
rs13434404	0.95[EUR][1000 genomes]
rs2705623	0.93[EUR][1000 genomes]
rs28407685	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28439108	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28447475	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28457189	0.94[EUR][1000 genomes]
rs28458234	0.95[EUR][1000 genomes]
rs28502831	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28594717	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28610346	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28620528	0.93[EUR][1000 genomes]
rs28629974	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28661703	0.96[EUR][1000 genomes]
rs28664715	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28706796	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28729679	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28854225	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28886889	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34991149	0.95[EUR][1000 genomes]
rs35480728	0.93[EUR][1000 genomes]
rs35667731	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs36053558	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4693788	0.82[EUR][1000 genomes]
rs71605624	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs71605686	0.93[EUR][1000 genomes]
rs71605687	0.93[EUR][1000 genomes]
rs71605688	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71605693	0.93[EUR][1000 genomes]
rs7683045	0.93[EUR][1000 genomes]
rs9993812	0.95[EUR][1000 genomes]
rs9999001	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1013308	chr4:87769694-87870168	Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv508297	chr4:87778783-87868508	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
4	nsv1009937	chr4:87795314-88008345	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87812000-87813800	Active TSS	Rectal Mucosa Donor 29	rectum
2	chr4:87812000-87814400	Active TSS	Esophagus	oesophagus
3	chr4:87812200-87814000	Active TSS	Breast Myoepithelial Primary Cells	Breast
4	chr4:87812400-87813800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr4:87812400-87813800	Active TSS	Hela-S3	cervix
6	chr4:87812400-87814000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr4:87812600-87813600	Active TSS	Pancreas	Pancrea
8	chr4:87812600-87813600	Active TSS	GM12878-XiMat	blood
9	chr4:87812600-87813800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr4:87812600-87813800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr4:87812600-87813800	Active TSS	Rectal Smooth Muscle	rectum
12	chr4:87812600-87813800	Active TSS	Sigmoid Colon	Sigmoid Colon
13	chr4:87812600-87813800	Active TSS	Skeletal Muscle Male	skeletal muscle
14	chr4:87812600-87813800	Active TSS	Stomach Smooth Muscle	stomach
15	chr4:87812600-87813800	Active TSS	NHLF	lung
16	chr4:87812600-87814000	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr4:87812600-87814000	Active TSS	Brain Hippocampus Middle	brain
18	chr4:87812600-87814000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
19	chr4:87812600-87814000	Active TSS	Placenta Amnion	Placenta Amnion
20	chr4:87812600-87814200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
21	chr4:87812600-87814200	Active TSS	Brain Angular Gyrus	brain
22	chr4:87812600-87814200	Active TSS	Fetal Intestine Large	intestine
23	chr4:87812600-87814400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr4:87812600-87814400	Active TSS	Pancreatic Islets	Pancreatic Islet
25	chr4:87812800-87813800	Active TSS	H1 Cell Line	embryonic stem cell
26	chr4:87812800-87813800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr4:87812800-87813800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr4:87812800-87813800	Active TSS	HUES48 Cell Line	embryonic stem cell
29	chr4:87812800-87813800	Active TSS	iPS-20b Cell Line	embryonic stem cell
30	chr4:87812800-87813800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr4:87812800-87813800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
32	chr4:87812800-87813800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr4:87812800-87813800	Active TSS	Primary T helper naive cells from peripheral blood	blood
34	chr4:87812800-87813800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
35	chr4:87812800-87813800	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
36	chr4:87812800-87813800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr4:87812800-87813800	Active TSS	Brain Anterior Caudate	brain
38	chr4:87812800-87813800	Active TSS	Fetal Lung	lung
39	chr4:87812800-87813800	Active TSS	Fetal Thymus	thymus
40	chr4:87812800-87813800	Active TSS	HepG2	liver
41	chr4:87812800-87813800	Active TSS	HSMM	muscle
42	chr4:87812800-87813800	Active TSS	K562	blood
43	chr4:87812800-87814000	Active TSS	HUES64 Cell Line	embryonic stem cell
44	chr4:87812800-87814000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
45	chr4:87812800-87814000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr4:87812800-87814000	Active TSS	Brain Substantia Nigra	brain
47	chr4:87812800-87814000	Active TSS	Colon Smooth Muscle	Colon
48	chr4:87812800-87814000	Active TSS	Ovary	ovary
49	chr4:87812800-87814000	Active TSS	Psoas Muscle	Psoas
50	chr4:87812800-87814000	Active TSS	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links