Variant report

Variant	rs62485264
Chromosome Location	chr7:138248541-138248542
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:138144597..138147178-chr7:138247813..138250121,2	MCF-7	breast:
2	chr7:138246609..138249506-chr7:138257780..138259380,2	K562	blood:

Variant related genes	Relation type
ENSG00000122779	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10155993	0.81[ASN][1000 genomes]
rs10215281	0.81[ASN][1000 genomes]
rs10227693	0.90[ASN][1000 genomes]
rs10232771	0.83[ASN][1000 genomes]
rs10247380	0.90[ASN][1000 genomes]
rs10248731	0.89[ASN][1000 genomes]
rs10258706	0.84[ASN][1000 genomes]
rs1030961	0.86[ASN][1000 genomes]
rs1116324	0.87[ASN][1000 genomes]
rs12112459	0.90[ASN][1000 genomes]
rs12666310	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1371463	0.85[EUR][1000 genomes]
rs1421604	0.81[ASN][1000 genomes]
rs1544733	0.91[ASN][1000 genomes]
rs1614641	0.84[EUR][1000 genomes]
rs1616318	0.80[ASN][1000 genomes]
rs1659830	0.86[ASN][1000 genomes]
rs1659831	0.84[EUR][1000 genomes]
rs1659832	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1673203	0.94[ASN][1000 genomes]
rs1673204	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1673205	0.87[ASN][1000 genomes]
rs1673206	0.89[ASN][1000 genomes]
rs1673207	0.83[ASN][1000 genomes]
rs1673211	0.85[EUR][1000 genomes]
rs17364560	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17461551	0.92[ASN][1000 genomes]
rs1813003	0.91[ASN][1000 genomes]
rs2353354	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2353355	0.93[ASN][1000 genomes]
rs3757381	0.85[ASN][1000 genomes]
rs3778705	0.97[ASN][1000 genomes]
rs3807155	0.91[ASN][1000 genomes]
rs3807156	0.83[ASN][1000 genomes]
rs3807157	0.81[ASN][1000 genomes]
rs55723768	0.87[ASN][1000 genomes]
rs56092804	0.87[ASN][1000 genomes]
rs57407834	0.86[ASN][1000 genomes]
rs58562866	0.90[ASN][1000 genomes]
rs62485261	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62485263	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62487615	0.84[ASN][1000 genomes]
rs62487616	0.85[ASN][1000 genomes]
rs62487619	0.87[ASN][1000 genomes]
rs6467776	0.81[ASN][1000 genomes]
rs6467778	0.81[ASN][1000 genomes]
rs6467780	0.86[ASN][1000 genomes]
rs6467782	0.92[ASN][1000 genomes]
rs6467783	0.93[ASN][1000 genomes]
rs6948094	0.92[ASN][1000 genomes]
rs6954285	0.93[ASN][1000 genomes]
rs6959574	0.90[ASN][1000 genomes]
rs6963539	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6970175	0.87[ASN][1000 genomes]
rs6974877	0.87[ASN][1000 genomes]
rs6978524	0.82[ASN][1000 genomes]
rs728092	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs749546	0.83[ASN][1000 genomes]
rs7795981	0.87[ASN][1000 genomes]
rs888609	0.83[ASN][1000 genomes]
rs9791462	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs985299	0.87[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	nsv831153	chr7:138078179-138265648	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv1030956	chr7:138163169-138579519	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:138228400-138252600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr7:138235000-138248600	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr7:138235000-138257400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr7:138235800-138253000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr7:138235800-138253200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
6	chr7:138236000-138254200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr7:138236800-138250800	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
8	chr7:138237000-138251200	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
9	chr7:138237000-138251600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr7:138237000-138252400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
11	chr7:138237200-138252600	ZNF genes & repeats	Dnd41	blood
12	chr7:138237400-138251400	ZNF genes & repeats	Primary B cells from cord blood	blood
13	chr7:138238200-138251200	ZNF genes & repeats	Adipose Nuclei	Adipose
14	chr7:138238400-138250800	ZNF genes & repeats	Thymus	Thymus
15	chr7:138238400-138251400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr7:138238400-138251400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
17	chr7:138238400-138251400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
18	chr7:138238400-138253600	ZNF genes & repeats	Fetal Intestine Small	intestine
19	chr7:138238600-138251200	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
20	chr7:138238600-138251600	ZNF genes & repeats	Brain Germinal Matrix	brain
21	chr7:138238600-138251800	ZNF genes & repeats	Fetal Muscle Leg	muscle
22	chr7:138238600-138252200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
23	chr7:138239200-138251000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
24	chr7:138239400-138251000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
25	chr7:138239400-138252600	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
26	chr7:138239600-138250800	ZNF genes & repeats	Fetal Brain Female	brain
27	chr7:138241400-138251000	ZNF genes & repeats	Fetal Stomach	stomach
28	chr7:138241400-138251200	ZNF genes & repeats	Placenta	Placenta
29	chr7:138242200-138248600	Strong transcription	Rectal Smooth Muscle	rectum
30	chr7:138242200-138248600	Genic enhancers	HepG2	liver
31	chr7:138242200-138248800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr7:138242200-138248800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr7:138242600-138248600	Strong transcription	Skeletal Muscle Male	skeletal muscle
34	chr7:138242600-138272400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
35	chr7:138242800-138251400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
36	chr7:138243000-138249000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr7:138243000-138249400	Strong transcription	Brain Hippocampus Middle	brain
38	chr7:138243200-138248600	Strong transcription	Stomach Smooth Muscle	stomach
39	chr7:138243200-138249000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr7:138243200-138249600	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr7:138243400-138248600	Weak transcription	NHDF-Ad	bronchial
42	chr7:138243400-138249000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr7:138243400-138249000	Weak transcription	NHEK	skin
44	chr7:138243400-138249200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr7:138243400-138249400	Weak transcription	Hela-S3	cervix
46	chr7:138243400-138249800	Weak transcription	HUVEC	blood vessel
47	chr7:138243600-138249000	Weak transcription	HMEC	breast
48	chr7:138243800-138248600	Weak transcription	HSMM	muscle
49	chr7:138243800-138249200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr7:138244200-138249600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links