Variant report

Variant	rs1677499
Chromosome Location	chr7:137584781-137584782
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:137584438..137586090-chr7:137588352..137591212,2	MCF-7	breast:
2	chr7:137570597..137573428-chr7:137582615..137585579,3	K562	blood:
3	chr3:156876358..156877967-chr7:137583930..137585430,2	MCF-7	breast:
4	chr7:137583170..137588345-chr7:137688405..137691754,4	K562	blood:

Variant related genes	Relation type
ENSG00000163660	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11977277	0.86[YRI][hapmap]
rs1646539	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1646540	0.88[CEU][hapmap];0.86[GIH][hapmap];0.86[MEX][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1677498	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2007564	0.83[CEU][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs273932	0.86[ASN][1000 genomes]
rs273935	0.85[ASN][1000 genomes]
rs273937	0.88[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs273942	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs273944	0.87[CEU][hapmap];0.94[CHB][hapmap];0.83[CHD][hapmap];0.88[JPT][hapmap];0.80[MEX][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs273969	0.84[CEU][hapmap];0.92[MEX][hapmap]
rs273970	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs273971	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs6963146	0.94[CHB][hapmap];0.81[CHD][hapmap];0.81[ASN][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	nsv1022793	chr7:137187383-137619359	Weak transcription Enhancers Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv831150	chr7:137500559-137652808	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv518070	chr7:137534627-137808839	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:137558800-137588400	Weak transcription	Stomach Mucosa	stomach
2	chr7:137570400-137585800	Weak transcription	Hela-S3	cervix
3	chr7:137570600-137585400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr7:137571800-137588200	Weak transcription	Brain Angular Gyrus	brain
5	chr7:137572000-137585800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr7:137575400-137591800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr7:137578400-137588200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr7:137579400-137588200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr7:137580000-137585000	Weak transcription	HMEC	breast
10	chr7:137580000-137588400	Weak transcription	Fetal Kidney	kidney
11	chr7:137581000-137588400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr7:137581000-137589800	Weak transcription	Spleen	Spleen
13	chr7:137581600-137584800	Weak transcription	Ovary	ovary
14	chr7:137582000-137584800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr7:137583200-137584800	Enhancers	Primary B cells from cord blood	blood
16	chr7:137583400-137584800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr7:137583400-137585000	Genic enhancers	Brain Hippocampus Middle	brain
18	chr7:137583800-137584800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr7:137583800-137584800	Genic enhancers	Osteobl	bone
20	chr7:137583800-137585000	Genic enhancers	Liver	Liver
21	chr7:137583800-137585000	Enhancers	Psoas Muscle	Psoas
22	chr7:137584000-137585000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr7:137584000-137585000	Genic enhancers	Duodenum Smooth Muscle	Duodenum
24	chr7:137584000-137585000	Genic enhancers	Placenta	Placenta
25	chr7:137584000-137585000	Enhancers	Left Ventricle	heart
26	chr7:137584000-137585200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr7:137584000-137585200	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr7:137584000-137585200	Genic enhancers	Colon Smooth Muscle	Colon
29	chr7:137584000-137585400	Genic enhancers	Fetal Muscle Leg	muscle
30	chr7:137584000-137588200	Strong transcription	Fetal Intestine Small	intestine
31	chr7:137584000-137588600	Strong transcription	Fetal Stomach	stomach
32	chr7:137584200-137585000	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr7:137584200-137585000	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr7:137584200-137585200	Strong transcription	Pancreas	Pancrea
35	chr7:137584200-137585400	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr7:137584200-137585800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr7:137584200-137586000	Strong transcription	Lung	lung
38	chr7:137584200-137586200	Genic enhancers	Rectal Smooth Muscle	rectum
39	chr7:137584200-137586400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr7:137584200-137588600	Strong transcription	HepG2	liver
41	chr7:137584200-137588600	Strong transcription	HSMMtube	muscle
42	chr7:137584200-137588800	Strong transcription	NHEK	skin
43	chr7:137584200-137601000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr7:137584200-137612000	Weak transcription	Fetal Brain Male	brain
45	chr7:137584400-137584800	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr7:137584400-137584800	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr7:137584400-137584800	Enhancers	Primary hematopoietic stem cells	blood
48	chr7:137584400-137584800	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr7:137584400-137584800	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr7:137584400-137585000	Weak transcription	Colonic Mucosa	Colon

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