Variant report

Variant	rs6938759
Chromosome Location	chr6:4067499-4067500
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4063965..4066148-chr6:4066336..4068654,2	MCF-7	breast:
2	chr6:4067254..4070253-chr6:4071525..4075483,4	K562	blood:
3	chr6:4061052..4063122-chr6:4065712..4067920,2	K562	blood:
4	chr6:4063481..4065487-chr6:4065794..4068948,3	K562	blood:
5	chr6:4064462..4068135-chr6:4134400..4138606,5	K562	blood:
6	chr6:4066739..4069378-chr6:4083684..4085264,2	MCF-7	breast:
7	chr6:4063868..4065487-chr6:4067448..4070082,2	K562	blood:

Variant related genes	Relation type
ENSG00000198721	Chromatin interaction
ENSG00000112739	Chromatin interaction
ENSG00000234817	Chromatin interaction
ENSG00000254821	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10485174	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17133225	1.00[AMR][1000 genomes]
rs17137618	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6927631	1.00[AMR][1000 genomes]
rs6937770	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73343809	1.00[AMR][1000 genomes]
rs73353381	1.00[AMR][1000 genomes]
rs9328223	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	56 gene(s)	inside rSNPs	diseases
4	nsv462615	chr6:4052383-4096678	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv600860	chr6:4052383-4096678	Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1030104	chr6:4062894-4240269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4023400-4071600	Weak transcription	Stomach Mucosa	stomach
2	chr6:4058200-4075000	Weak transcription	Small Intestine	intestine
3	chr6:4060400-4068200	Weak transcription	Ovary	ovary
4	chr6:4061400-4067800	Weak transcription	Esophagus	oesophagus
5	chr6:4061600-4068000	Weak transcription	Lung	lung
6	chr6:4061600-4068000	Weak transcription	Spleen	Spleen
7	chr6:4061600-4068600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:4062800-4068000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:4062800-4068000	Weak transcription	Aorta	Aorta
10	chr6:4063000-4073000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:4063200-4068000	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr6:4063400-4068200	Weak transcription	Fetal Lung	lung
13	chr6:4063400-4078800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:4063600-4068000	Weak transcription	Thymus	Thymus
15	chr6:4063600-4072000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr6:4063800-4068200	Weak transcription	Fetal Brain Male	brain
17	chr6:4063800-4068600	Weak transcription	Colon Smooth Muscle	Colon
18	chr6:4063800-4073200	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr6:4064000-4067600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr6:4064000-4067800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr6:4064000-4068800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr6:4064000-4077600	Weak transcription	Brain Anterior Caudate	brain
23	chr6:4064200-4068000	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr6:4064200-4068200	Weak transcription	Primary hematopoietic stem cells	blood
25	chr6:4064800-4067600	Weak transcription	Colonic Mucosa	Colon
26	chr6:4065200-4069400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr6:4065200-4077400	Weak transcription	Brain Substantia Nigra	brain
28	chr6:4065400-4068000	Weak transcription	GM12878-XiMat	blood
29	chr6:4065600-4068400	Weak transcription	Fetal Kidney	kidney
30	chr6:4065600-4069000	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr6:4065800-4067800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr6:4065800-4068000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr6:4065800-4068200	Weak transcription	Placenta	Placenta
34	chr6:4065800-4068600	Weak transcription	Fetal Muscle Leg	muscle
35	chr6:4065800-4069000	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr6:4065800-4069200	Weak transcription	K562	blood
37	chr6:4065800-4069600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr6:4066000-4067600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr6:4066000-4067600	Weak transcription	A549	lung
40	chr6:4066000-4068200	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr6:4066000-4068200	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr6:4066000-4068200	Weak transcription	HSMMtube	muscle
43	chr6:4066000-4068600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:4066000-4071000	Weak transcription	Gastric	stomach
45	chr6:4066000-4071200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:4066000-4077400	Weak transcription	Brain Hippocampus Middle	brain
47	chr6:4066200-4067800	Weak transcription	Hela-S3	cervix
48	chr6:4066200-4068000	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr6:4066200-4068000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr6:4066200-4068200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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