Variant report

Variant	rs1212828
Chromosome Location	chr6:64362200-64362201
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:64357247..64360199-chr6:64361226..64363943,3	K562	blood:
2	chr6:64344337..64347250-chr6:64361782..64364684,2	MCF-7	breast:
3	chr6:64356578..64359502-chr6:64361226..64363296,2	K562	blood:

Variant related genes	Relation type
ENSG00000118482	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10455430	0.84[ASN][1000 genomes]
rs10485358	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1057530	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10755432	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10943975	0.84[EUR][1000 genomes]
rs12190601	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12198142	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12205302	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1575054	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1884117	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1889096	0.84[ASN][1000 genomes]
rs319920	0.80[ASN][1000 genomes]
rs319923	0.80[ASN][1000 genomes]
rs319924	0.80[ASN][1000 genomes]
rs319925	0.80[ASN][1000 genomes]
rs4562122	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4710437	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62412950	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67875483	0.80[ASN][1000 genomes]
rs6921180	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6932538	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7767473	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830674	chr6:64355412-64535801	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64347000-64370600	Weak transcription	Left Ventricle	heart
2	chr6:64347000-64383200	Weak transcription	Esophagus	oesophagus
3	chr6:64347000-64422400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:64347400-64370800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:64347600-64365200	Weak transcription	Fetal Stomach	stomach
6	chr6:64347600-64381000	Weak transcription	Fetal Thymus	thymus
7	chr6:64347800-64370600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:64347800-64386400	Weak transcription	Colonic Mucosa	Colon
9	chr6:64349400-64370600	Weak transcription	Stomach Smooth Muscle	stomach
10	chr6:64350000-64363000	Weak transcription	Brain Germinal Matrix	brain
11	chr6:64350200-64374400	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr6:64350200-64381200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr6:64350200-64382800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:64350400-64368400	Weak transcription	Fetal Brain Male	brain
15	chr6:64350400-64369600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr6:64350600-64373200	Weak transcription	HSMM	muscle
17	chr6:64351000-64373200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr6:64351200-64385000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:64351200-64405000	Weak transcription	Thymus	Thymus
20	chr6:64351400-64369400	Weak transcription	Fetal Heart	heart
21	chr6:64352200-64362200	Weak transcription	Fetal Muscle Leg	muscle
22	chr6:64352200-64365600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr6:64352800-64374200	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr6:64354000-64421200	Weak transcription	Gastric	stomach
25	chr6:64354200-64383600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr6:64355000-64373000	Weak transcription	NH-A	brain
27	chr6:64355200-64362600	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr6:64355200-64364800	Weak transcription	Lung	lung
29	chr6:64355200-64366800	Weak transcription	Right Atrium	heart
30	chr6:64355200-64368000	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr6:64355200-64373200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr6:64355200-64381600	Weak transcription	Fetal Intestine Small	intestine
33	chr6:64355600-64363600	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:64356400-64362600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr6:64357200-64362200	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr6:64357200-64370600	Weak transcription	Psoas Muscle	Psoas
37	chr6:64357400-64362200	Weak transcription	Primary B cells from cord blood	blood
38	chr6:64357400-64362200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:64357400-64363800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr6:64357400-64364600	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr6:64357400-64381200	Weak transcription	Dnd41	blood
42	chr6:64357600-64362600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr6:64357600-64373000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:64357800-64393400	Weak transcription	Placenta	Placenta
45	chr6:64358000-64362400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr6:64358200-64365200	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr6:64358400-64362400	Weak transcription	Primary B cells from peripheral blood	blood
48	chr6:64358400-64369600	Weak transcription	HepG2	liver
49	chr6:64358400-64370000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr6:64358400-64382800	Weak transcription	HUES64 Cell Line	embryonic stem cell

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