Variant report

Variant	rs301388
Chromosome Location	chr6:25514532-25514533
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25279560..25282363-chr6:25514276..25517031,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000079691	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10456322	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10456323	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192331	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192342	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12207668	0.83[EUR][1000 genomes]
rs12207791	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12214693	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1410443	0.81[ASN][1000 genomes]
rs150533	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs184202	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212927	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212929	0.81[ASN][1000 genomes]
rs212931	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212932	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212935	0.81[ASN][1000 genomes]
rs212937	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212939	0.81[ASN][1000 genomes]
rs212940	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2762357	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs301376	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs301377	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3827502	0.95[EUR][1000 genomes]
rs441472	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs443641	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs453181	0.81[ASN][1000 genomes]
rs485567	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55633691	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55883446	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56285037	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56383372	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6902158	0.91[EUR][1000 genomes]
rs6927384	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6931843	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72839082	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839085	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839087	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839088	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839089	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7738866	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7742338	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9348685	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9379774	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv10468	chr6:25506093-25519529	Weak transcription ZNF genes & repeats Enhancers Genic enhancers Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3387672	chr6:25514344-25514533	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25449400-25515800	Weak transcription	Lung	lung
2	chr6:25456400-25515800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:25456400-25537000	Weak transcription	Esophagus	oesophagus
4	chr6:25463200-25532200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:25464200-25518400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr6:25466400-25516000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:25466800-25515800	Weak transcription	Fetal Stomach	stomach
8	chr6:25471600-25597200	Weak transcription	Gastric	stomach
9	chr6:25473600-25516000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:25480800-25523600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:25483000-25532200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:25484800-25515600	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:25490400-25515800	Weak transcription	Thymus	Thymus
14	chr6:25490400-25521800	Weak transcription	GM12878-XiMat	blood
15	chr6:25490400-25543000	Weak transcription	Hela-S3	cervix
16	chr6:25490600-25524600	Weak transcription	A549	lung
17	chr6:25490800-25515800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr6:25490800-25515800	Weak transcription	Ovary	ovary
19	chr6:25490800-25516400	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr6:25490800-25521400	Weak transcription	Small Intestine	intestine
21	chr6:25491600-25521000	Weak transcription	HSMMtube	muscle
22	chr6:25494000-25515400	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr6:25494000-25515600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:25494000-25551400	Weak transcription	Left Ventricle	heart
25	chr6:25494600-25515600	Weak transcription	Fetal Thymus	thymus
26	chr6:25495000-25515800	Weak transcription	Fetal Lung	lung
27	chr6:25495000-25516400	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr6:25498000-25515800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr6:25500400-25515800	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr6:25500400-25515800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:25500400-25516000	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr6:25500600-25515800	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr6:25500600-25516000	Weak transcription	HMEC	breast
34	chr6:25500600-25516400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr6:25500600-25520800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr6:25500600-25523800	Weak transcription	Placenta	Placenta
37	chr6:25500800-25516000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr6:25501800-25515200	Weak transcription	Duodenum Mucosa	Duodenum
39	chr6:25502000-25515800	Weak transcription	Fetal Intestine Large	intestine
40	chr6:25504000-25518000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr6:25505000-25515600	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr6:25505600-25515800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr6:25506600-25515800	Weak transcription	Aorta	Aorta
44	chr6:25506600-25537400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr6:25506800-25515600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr6:25506800-25521000	Weak transcription	NHEK	skin
47	chr6:25507600-25525600	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr6:25508800-25515800	Weak transcription	Pancreas	Pancrea
49	chr6:25508800-25521200	Weak transcription	Spleen	Spleen
50	chr6:25509000-25515600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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