Variant report

Variant	rs7681835
Chromosome Location	chr4:119690096-119690097
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	chr4:119689368..119690979-chr4:119755279..119757567,2	MCF-7	breast:
2	chr4:119678126..119681409-chr4:119688940..119691531,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150961	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs11724866	0.86[EUR][1000 genomes]
rs11730728	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11735989	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11945703	0.94[CEU][hapmap];0.86[EUR][1000 genomes]
rs12640223	0.86[EUR][1000 genomes]
rs12646268	0.84[EUR][1000 genomes]
rs12646298	0.85[EUR][1000 genomes]
rs12648682	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs12648778	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs13105145	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13105732	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13111664	0.86[EUR][1000 genomes]
rs13115157	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs13124091	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs13146440	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs13146816	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs13150663	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2029399	0.94[CEU][hapmap];0.82[EUR][1000 genomes]
rs2046779	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs2288307	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3087958	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs34091082	0.88[EUR][1000 genomes]
rs34270389	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34508500	0.88[EUR][1000 genomes]
rs34628947	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35023705	0.86[EUR][1000 genomes]
rs35071348	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35392662	0.89[EUR][1000 genomes]
rs35404779	0.89[EUR][1000 genomes]
rs35522890	0.86[EUR][1000 genomes]
rs35613641	0.86[EUR][1000 genomes]
rs35952841	0.86[EUR][1000 genomes]
rs36023173	0.86[EUR][1000 genomes]
rs3733517	0.94[CEU][hapmap];0.86[EUR][1000 genomes]
rs66500248	0.86[EUR][1000 genomes]
rs66942289	0.86[EUR][1000 genomes]
rs67151421	0.87[EUR][1000 genomes]
rs67989872	0.88[EUR][1000 genomes]
rs6813357	0.94[CEU][hapmap];0.86[EUR][1000 genomes]
rs6814447	0.86[EUR][1000 genomes]
rs6817440	0.82[YRI][hapmap]
rs6817790	0.86[EUR][1000 genomes]
rs6818241	0.86[EUR][1000 genomes]
rs6821350	0.86[EUR][1000 genomes]
rs6827740	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6829010	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6831197	0.86[EUR][1000 genomes]
rs6836005	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs6837652	0.86[EUR][1000 genomes]
rs6847706	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs6849714	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6852706	0.85[EUR][1000 genomes]
rs6853722	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6855919	0.86[EUR][1000 genomes]
rs6857285	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs71610228	0.86[EUR][1000 genomes]
rs72679023	0.89[EUR][1000 genomes]
rs7653962	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs7662650	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7670182	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7692721	0.94[CEU][hapmap];0.86[EUR][1000 genomes]
rs7695602	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs7696543	0.89[EUR][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	nsv519017	chr4:118828807-119771481	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv3355840	chr4:119296640-119774737	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7681835	RP11-384K6.6	cis	Artery Tibial	GTEx

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119607800-119693800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:119625800-119718000	Weak transcription	Hela-S3	cervix
3	chr4:119640800-119692600	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr4:119649200-119693600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr4:119659600-119690400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr4:119662000-119694400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr4:119668200-119690200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr4:119678200-119692000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
9	chr4:119678600-119717400	Weak transcription	Esophagus	oesophagus
10	chr4:119679000-119717600	Weak transcription	Colonic Mucosa	Colon
11	chr4:119680400-119693400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr4:119680600-119691800	Strong transcription	HUES6 Cell Line	embryonic stem cell
13	chr4:119681000-119692200	Strong transcription	HepG2	liver
14	chr4:119681200-119691600	Strong transcription	Placenta	Placenta
15	chr4:119681400-119691800	Strong transcription	HUES48 Cell Line	embryonic stem cell
16	chr4:119682200-119691600	Strong transcription	Primary monocytes fromperipheralblood	blood
17	chr4:119682200-119691600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr4:119682200-119692200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr4:119682200-119692400	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr4:119684200-119693400	Weak transcription	Fetal Brain Male	brain
21	chr4:119684400-119704000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr4:119685600-119692400	Strong transcription	Liver	Liver
23	chr4:119685800-119694400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr4:119686800-119704600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr4:119687200-119691800	Weak transcription	Brain Substantia Nigra	brain
26	chr4:119687400-119691400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr4:119687400-119691600	Strong transcription	GM12878-XiMat	blood
28	chr4:119687600-119690800	Strong transcription	HMEC	breast
29	chr4:119687600-119691000	Strong transcription	Fetal Intestine Small	intestine
30	chr4:119687600-119711800	Weak transcription	Stomach Mucosa	stomach
31	chr4:119688000-119690200	Weak transcription	Fetal Heart	heart
32	chr4:119688000-119691000	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr4:119688000-119693600	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr4:119688200-119690600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr4:119688200-119690600	Strong transcription	NH-A	brain
36	chr4:119688200-119691000	Strong transcription	HSMMtube	muscle
37	chr4:119688200-119691000	Strong transcription	NHLF	lung
38	chr4:119688200-119692200	Strong transcription	HSMM	muscle
39	chr4:119688400-119691400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr4:119688400-119692400	Strong transcription	Fetal Muscle Leg	muscle
41	chr4:119688400-119693600	Weak transcription	Brain Hippocampus Middle	brain
42	chr4:119688400-119693600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr4:119688400-119693800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr4:119688400-119693800	Weak transcription	Psoas Muscle	Psoas
45	chr4:119688400-119693800	Weak transcription	Small Intestine	intestine
46	chr4:119688400-119702400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr4:119688600-119690200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr4:119688600-119690200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr4:119688600-119690200	Weak transcription	Rectal Smooth Muscle	rectum
50	chr4:119688600-119690200	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links