Variant report

Variant	rs668796
Chromosome Location	chr10:6207029-6207030
allele	C/G
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:6185303..6188661-chr10:6204606..6207335,3	MCF-7	breast:
2	chr10:6205792..6207491-chr10:6220254..6222481,2	MCF-7	breast:
3	chr10:6183365..6192251-chr10:6204124..6207252,15	MCF-7	breast:
4	chr10:6154386..6156653-chr10:6205525..6207284,3	MCF-7	breast:
5	chr10:6191671..6194517-chr10:6205867..6207550,2	K562	blood:
6	chr10:6185340..6191102-chr10:6203416..6207424,7	K562	blood:
7	chr10:6204469..6207295-chr10:6338789..6342054,3	MCF-7	breast:
8	chr10:6202871..6212786-chr10:6240811..6248696,29	MCF-7	breast:
9	chr10:6203753..6210403-chr10:6228380..6234446,7	MCF-7	breast:
10	chr10:6180971..6185195-chr10:6203384..6207419,4	MCF-7	breast:
11	chr10:6203235..6207397-chr10:6442888..6446681,6	MCF-7	breast:
12	chr10:6192754..6196744-chr10:6204087..6207333,8	MCF-7	breast:
13	chr10:6128980..6130903-chr10:6206068..6209123,3	K562	blood:
14	chr10:6185650..6194925-chr10:6200700..6207657,20	K562	blood:
15	chr10:6204009..6209137-chr10:6241452..6247054,19	MCF-7	breast:
16	chr10:6129123..6132271-chr10:6205782..6209123,3	K562	blood:
17	chr10:6205192..6207297-chr10:6278573..6280926,3	MCF-7	breast:
18	chr10:6205467..6207907-chr10:6231128..6234046,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000134453	Chromatin interaction
ENSG00000201581	Chromatin interaction
ENSG00000263628	Chromatin interaction
ENSG00000213994	Chromatin interaction
ENSG00000170525	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12572233	0.86[EUR][1000 genomes]
rs12572255	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs605015	0.85[EUR][1000 genomes]
rs609587	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs613960	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs629298	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs641736	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs642104	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs643503	0.95[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs643867	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs652318	0.95[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs653265	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs654876	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs657523	0.96[EUR][1000 genomes]
rs657600	0.98[EUR][1000 genomes]
rs658386	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs669534	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7896238	0.87[EUR][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	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv1040721	chr10:6155144-6322566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv540476	chr10:6155144-6322566	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv894817	chr10:6173416-6251252	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6188400-6225200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:6205200-6207200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr10:6205200-6207200	Active TSS	Duodenum Smooth Muscle	Duodenum
4	chr10:6206000-6207200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr10:6206200-6207200	Flanking Active TSS	Adipose Nuclei	Adipose
6	chr10:6206200-6207400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
7	chr10:6206200-6207400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
8	chr10:6206400-6207200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr10:6206400-6207200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr10:6206400-6207400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:6206400-6207400	Flanking Active TSS	Fetal Heart	heart
12	chr10:6206400-6210400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:6206600-6207200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:6206600-6207200	Enhancers	Primary B cells from peripheral blood	blood
15	chr10:6206600-6207200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
16	chr10:6206600-6207200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr10:6206600-6207400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr10:6206600-6207400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr10:6206600-6207600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr10:6206600-6207600	Enhancers	Primary neutrophils fromperipheralblood	blood
21	chr10:6206600-6207600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr10:6206600-6207600	Enhancers	Brain Substantia Nigra	brain
23	chr10:6206600-6207600	Enhancers	Placenta Amnion	Placenta Amnion
24	chr10:6206600-6207600	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr10:6206600-6207800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr10:6206600-6208200	Enhancers	Placenta	Placenta
27	chr10:6206600-6208400	Enhancers	Small Intestine	intestine
28	chr10:6206600-6210200	Weak transcription	Esophagus	oesophagus
29	chr10:6206600-6210200	Weak transcription	Ovary	ovary
30	chr10:6206600-6220000	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr10:6206800-6207200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr10:6206800-6207200	Enhancers	Primary monocytes fromperipheralblood	blood
33	chr10:6206800-6207200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr10:6206800-6207400	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr10:6206800-6207400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr10:6206800-6207400	Enhancers	Fetal Intestine Small	intestine
37	chr10:6206800-6207400	Enhancers	Fetal Muscle Leg	muscle
38	chr10:6206800-6207400	Enhancers	Fetal Thymus	thymus
39	chr10:6206800-6207400	Flanking Active TSS	K562	blood
40	chr10:6206800-6207600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr10:6206800-6207600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr10:6206800-6207600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr10:6206800-6207600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
44	chr10:6206800-6207600	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr10:6206800-6207600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr10:6206800-6207600	Enhancers	Brain Cingulate Gyrus	brain
47	chr10:6206800-6207600	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr10:6206800-6207600	Enhancers	Thymus	Thymus
49	chr10:6206800-6207600	Enhancers	HUVEC	blood vessel
50	chr10:6206800-6207800	Enhancers	Primary T helper naive cells from peripheral blood	blood

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