Variant report

Variant	rs233475
Chromosome Location	chr6:4800879-4800880
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:4775448..4778029-chr6:4799501..4801603,2	K562	blood:
2	chr6:4796490..4799008-chr6:4800485..4802144,2	K562	blood:
3	chr6:4775144..4777679-chr6:4800698..4802605,2	MCF-7	breast:
4	chr6:4794303..4796795-chr6:4800543..4803644,3	MCF-7	breast:
5	chr6:4774365..4776948-chr6:4800103..4802480,2	K562	blood:
6	chr6:4799699..4801522-chr6:4807036..4809362,2	MCF-7	breast:
7	chr6:4792198..4795209-chr6:4799398..4802329,4	K562	blood:
8	chr6:4799940..4802712-chr6:4806836..4810096,3	K562	blood:
9	chr6:4725963..4727967-chr6:4800133..4802189,2	K562	blood:
10	chr6:4800467..4802843-chr6:4809432..4811722,2	MCF-7	breast:
11	chr6:4800052..4801970-chr6:4804780..4807204,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000236336	Chromatin interaction
ENSG00000153046	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1022497	0.84[AFR][1000 genomes]
rs1022498	0.84[AFR][1000 genomes]
rs11967447	0.81[AFR][1000 genomes]
rs11967765	0.86[AFR][1000 genomes]
rs11967801	0.86[AFR][1000 genomes]
rs11967926	0.81[AFR][1000 genomes]
rs11968053	0.81[AFR][1000 genomes]
rs1265329	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs1265331	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs2875969	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs4367417	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs56740053	0.88[AFR][1000 genomes]
rs57143473	0.88[AFR][1000 genomes]
rs57484544	0.88[AFR][1000 genomes]
rs57890105	0.81[AFR][1000 genomes]
rs59852455	0.88[AFR][1000 genomes]
rs60632423	0.81[AFR][1000 genomes]
rs6911106	0.81[AFR][1000 genomes]
rs6922314	0.88[AFR][1000 genomes]
rs6936040	0.86[AFR][1000 genomes]
rs6939986	0.81[AFR][1000 genomes]
rs7744408	0.84[AFR][1000 genomes]
rs7747385	0.88[AFR][1000 genomes]
rs7748721	0.84[AFR][1000 genomes]
rs7762268	0.84[AFR][1000 genomes]
rs7764676	0.81[AFR][1000 genomes]
rs7764795	0.81[AFR][1000 genomes]
rs7765321	0.81[AFR][1000 genomes]
rs808619	1.00[YRI][hapmap]
rs808623	1.00[YRI][hapmap]
rs808624	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1015888	chr6:4787784-4883663	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4787400-4808800	Weak transcription	Aorta	Aorta
2	chr6:4790200-4803200	Weak transcription	Pancreas	Pancrea
3	chr6:4790600-4801600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:4790800-4801200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:4790800-4801200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr6:4794800-4801800	Weak transcription	Psoas Muscle	Psoas
7	chr6:4794800-4802600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:4794800-4803200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:4794800-4803200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:4794800-4803600	Weak transcription	Esophagus	oesophagus
11	chr6:4794800-4804400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:4794800-4818800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr6:4795000-4802000	Weak transcription	Small Intestine	intestine
14	chr6:4795000-4802600	Weak transcription	Right Ventricle	heart
15	chr6:4795000-4803000	Weak transcription	Left Ventricle	heart
16	chr6:4795000-4803200	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:4795000-4803200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:4795000-4803200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:4795000-4806200	Weak transcription	Gastric	stomach
20	chr6:4795200-4801200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:4795200-4803400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr6:4795200-4803800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr6:4795200-4806600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr6:4796000-4801000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr6:4796600-4801600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr6:4797400-4803200	Weak transcription	HSMM	muscle
27	chr6:4798000-4803200	Weak transcription	NHEK	skin
28	chr6:4798200-4803600	Weak transcription	Hela-S3	cervix
29	chr6:4798200-4803600	Weak transcription	NHLF	lung
30	chr6:4798400-4801000	Weak transcription	K562	blood
31	chr6:4798400-4803200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:4798600-4801200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:4800000-4801800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr6:4800000-4802200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr6:4800000-4802400	Weak transcription	Ovary	ovary
36	chr6:4800000-4802600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr6:4800000-4803200	Weak transcription	Spleen	Spleen
38	chr6:4800000-4810400	Weak transcription	Fetal Intestine Small	intestine
39	chr6:4800200-4801600	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr6:4800200-4801600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr6:4800200-4801800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:4800600-4801400	Enhancers	HUVEC	blood vessel
43	chr6:4800600-4802800	Flanking Active TSS	GM12878-XiMat	blood
44	chr6:4800800-4801000	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr6:4800800-4801600	Enhancers	Rectal Mucosa Donor 31	rectum
46	chr6:4800800-4802000	Enhancers	iPS-18 Cell Line	embryonic stem cell
47	chr6:4800800-4802200	Enhancers	Primary B cells from cord blood	blood
48	chr6:4800800-4804000	Enhancers	Primary T helper cells PMA-I stimulated	--

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