Variant report

Variant	rs7771603
Chromosome Location	chr6:166750452-166750453
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:166748322..166751240-chr6:166751244..166753150,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10455809	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10455976	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10455977	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10455978	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10946152	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10946158	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10946160	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10946161	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11551053	0.91[ASN][1000 genomes]
rs11752886	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11753652	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11755305	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12198613	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12209616	0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12214281	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12214812	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12662920	0.80[EUR][1000 genomes]
rs12662924	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1599841	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2294333	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2294334	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2294335	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4144886	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4144887	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4144888	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55936781	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59337176	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66461381	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs68016351	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73030701	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73263155	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73788236	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7740965	0.81[AMR][1000 genomes]
rs7753161	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7767887	0.86[ASN][1000 genomes]
rs941683	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[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	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	nsv981205	chr6:166748596-166751156	Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7771603	SFT2D1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166732400-166751600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:166733200-166753600	Weak transcription	Fetal Heart	heart
3	chr6:166733800-166753800	Weak transcription	Hela-S3	cervix
4	chr6:166734600-166754800	Weak transcription	HUVEC	blood vessel
5	chr6:166738200-166754200	Weak transcription	NH-A	brain
6	chr6:166739400-166755400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:166740000-166750800	Weak transcription	HSMMtube	muscle
8	chr6:166741400-166752400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:166742200-166751200	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr6:166742600-166754000	Weak transcription	Fetal Kidney	kidney
11	chr6:166742800-166751000	Weak transcription	HSMM	muscle
12	chr6:166744400-166750600	Weak transcription	NHLF	lung
13	chr6:166744400-166752000	Weak transcription	Right Atrium	heart
14	chr6:166744400-166754800	Weak transcription	NHDF-Ad	bronchial
15	chr6:166745400-166754400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr6:166745400-166755000	Weak transcription	A549	lung
17	chr6:166745800-166752200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr6:166746000-166752000	Strong transcription	Fetal Intestine Large	intestine
19	chr6:166746200-166752800	Strong transcription	Fetal Intestine Small	intestine
20	chr6:166746200-166753800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:166746200-166754800	Genic enhancers	Primary B cells from peripheral blood	blood
22	chr6:166746400-166752600	Genic enhancers	Spleen	Spleen
23	chr6:166746600-166751800	Weak transcription	Colon Smooth Muscle	Colon
24	chr6:166746600-166752400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:166747000-166753400	Weak transcription	Fetal Brain Male	brain
26	chr6:166747200-166750600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:166747200-166751800	Strong transcription	HepG2	liver
28	chr6:166747200-166752000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:166747200-166754600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:166747400-166751400	Strong transcription	Stomach Smooth Muscle	stomach
31	chr6:166747400-166752000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:166747600-166751400	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr6:166747600-166753000	Strong transcription	Fetal Muscle Leg	muscle
34	chr6:166747600-166753800	Weak transcription	Rectal Smooth Muscle	rectum
35	chr6:166747600-166754000	Strong transcription	Fetal Stomach	stomach
36	chr6:166747800-166750600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr6:166747800-166755000	Enhancers	Primary T killer memory cells from peripheral blood	blood
38	chr6:166748000-166750800	Strong transcription	Aorta	Aorta
39	chr6:166748000-166751200	Strong transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:166748000-166751800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:166748000-166752000	Weak transcription	Pancreas	Pancrea
42	chr6:166748000-166752000	Genic enhancers	Dnd41	blood
43	chr6:166748000-166752400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr6:166748000-166753000	Strong transcription	K562	blood
45	chr6:166748000-166754000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr6:166748200-166751600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr6:166748200-166751800	Strong transcription	HUES48 Cell Line	embryonic stem cell
48	chr6:166748200-166751800	Strong transcription	Liver	Liver
49	chr6:166748200-166752000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
50	chr6:166748200-166752000	Strong transcription	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links