Variant report

Variant	rs9341801
Chromosome Location	chr6:80715163-80715164
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	KAP1	chr6:80713301-80715345	HEK293	kidney:	n/a	n/a
2	SIN3A	chr6:80713506-80715180	H1-hESC	embryonic stem cell:	n/a	n/a
3	MXI1	chr6:80713571-80715375	IMR90	lung:	n/a	n/a
4	JUND	chr6:80713819-80715468	K562	blood:	n/a	chr6:80715313-80715322
5	E2F4	chr6:80713236-80716364	MCF10A-Er-Src	breast:	n/a	chr6:80713962-80713969 chr6:80715312-80715321 chr6:80713962-80713969 chr6:80714200-80714210 chr6:80713962-80713969 chr6:80715314-80715323
6	CUX1	chr6:80715120-80715308	K562	blood:	n/a	n/a
7	JUND	chr6:80715137-80715511	HepG2	liver:	n/a	chr6:80715313-80715322
8	POLR2A	chr6:80713862-80715553	K562	blood:	n/a	n/a
9	MXI1	chr6:80714252-80715224	K562	blood:	n/a	n/a
10	GATA1	chr6:80714056-80715375	PBDE	blood:	n/a	chr6:80714967-80714976 chr6:80714967-80714977 chr6:80714873-80714882
11	JUN	chr6:80715127-80715484	HepG2	liver:	n/a	chr6:80715312-80715325 chr6:80715313-80715322
12	POLR2A	chr6:80713208-80715469	GM12891	blood:	n/a	n/a
13	POLR2A	chr6:80713378-80715225	PBDE	blood:	n/a	n/a
14	RCOR1	chr6:80713834-80715258	K562	blood:	n/a	n/a

Variant related genes	Relation type
TTK	TF binding region

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10943681	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10943682	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10943688	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1205578	0.94[ASN][1000 genomes]
rs1205579	0.83[JPT][hapmap]
rs12526265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1410521	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1410522	1.00[CEU][hapmap];0.91[CHB][hapmap];0.83[JPT][hapmap];0.85[YRI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs151642	0.93[ASN][1000 genomes]
rs151645	0.83[ASN][1000 genomes]
rs151657	0.93[ASN][1000 genomes]
rs151658	0.83[JPT][hapmap]
rs151660	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs151663	0.83[JPT][hapmap]
rs151664	0.83[JPT][hapmap]
rs1897870	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927425	0.84[CEU][hapmap];0.87[CHB][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1927426	0.83[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2149082	0.83[EUR][1000 genomes]
rs2181070	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2295838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2295840	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2295841	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs239495	0.85[ASN][1000 genomes]
rs239497	0.92[ASN][1000 genomes]
rs239500	0.93[ASN][1000 genomes]
rs239552	0.83[JPT][hapmap]
rs239554	0.82[JPT][hapmap]
rs239555	0.83[JPT][hapmap]
rs239558	0.83[JPT][hapmap]
rs239560	0.91[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs239572	0.83[JPT][hapmap]
rs239578	0.93[ASN][1000 genomes]
rs239582	0.86[JPT][hapmap]
rs239583	0.93[JPT][hapmap]
rs239587	0.83[JPT][hapmap]
rs240212	0.83[JPT][hapmap]
rs240213	0.92[JPT][hapmap]
rs240214	0.94[ASN][1000 genomes]
rs240216	0.83[JPT][hapmap]
rs240217	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs240218	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs240228	0.83[JPT][hapmap]
rs240229	0.83[JPT][hapmap]
rs2757084	0.93[ASN][1000 genomes]
rs2769337	0.94[ASN][1000 genomes]
rs3799497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3812151	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3967160	0.81[EUR][1000 genomes]
rs465483	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs4706108	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4706826	0.92[ASN][1000 genomes]
rs4706827	0.82[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs587984	0.94[ASN][1000 genomes]
rs61795	0.83[JPT][hapmap]
rs61796	0.83[JPT][hapmap]
rs652752	0.94[ASN][1000 genomes]
rs653665	0.83[JPT][hapmap]
rs666040	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs6925415	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9294168	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9341802	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9341803	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9343961	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9343965	0.83[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9350843	0.91[CEU][hapmap];0.88[EUR][1000 genomes]
rs9352790	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9352797	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9359406	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9448877	0.91[ASN][1000 genomes]
rs9448880	0.81[EUR][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	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80713200-80715200	Active TSS	HUES64 Cell Line	embryonic stem cell
2	chr6:80713200-80715400	Active TSS	iPS-20b Cell Line	embryonic stem cell
3	chr6:80713200-80715400	Active TSS	NHDF-Ad	bronchial
4	chr6:80713200-80715600	Active TSS	iPS-15b Cell Line	embryonic stem cell
5	chr6:80713400-80715200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
6	chr6:80713400-80715200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:80713400-80715200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr6:80713400-80715200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:80713400-80715200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr6:80713400-80715400	Active TSS	Fetal Intestine Large	intestine
11	chr6:80713400-80715600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr6:80713400-80715800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:80713400-80715800	Active TSS	A549	lung
14	chr6:80713400-80717200	Active TSS	Thymus	Thymus
15	chr6:80713600-80715200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:80713600-80715200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:80713600-80715200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:80713600-80715400	Active TSS	H9 Cell Line	embryonic stem cell
19	chr6:80713600-80715400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:80713600-80715400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:80713600-80715600	Active TSS	ES-I3 Cell Line	embryonic stem cell
22	chr6:80713600-80715600	Active TSS	H1 Cell Line	embryonic stem cell
23	chr6:80713600-80715600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr6:80713600-80715600	Active TSS	iPS-18 Cell Line	embryonic stem cell
25	chr6:80713600-80716000	Active TSS	HUES6 Cell Line	embryonic stem cell
26	chr6:80713600-80716000	Active TSS	NHLF	lung
27	chr6:80713800-80715800	Active TSS	HUES48 Cell Line	embryonic stem cell
28	chr6:80713800-80716600	Active TSS	Fetal Thymus	thymus
29	chr6:80714000-80715200	Active TSS	K562	blood
30	chr6:80714000-80715600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr6:80714000-80715800	Active TSS	HMEC	breast
32	chr6:80714000-80716000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr6:80714000-80716000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr6:80714000-80716800	Active TSS	GM12878-XiMat	blood
35	chr6:80714400-80715200	Flanking Active TSS	Primary B cells from cord blood	blood
36	chr6:80714400-80715200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:80714400-80715200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
38	chr6:80714600-80715200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr6:80714600-80715200	Flanking Active TSS	Primary hematopoietic stem cells	blood
40	chr6:80714600-80715200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
41	chr6:80714600-80715200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
42	chr6:80714600-80715200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:80714600-80715200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:80714600-80715200	Flanking Active TSS	Duodenum Mucosa	Duodenum
45	chr6:80714600-80715200	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
46	chr6:80714600-80715200	Flanking Active TSS	Fetal Brain Female	brain
47	chr6:80714600-80715200	Flanking Active TSS	Fetal Intestine Small	intestine
48	chr6:80714600-80715200	Flanking Active TSS	NH-A	brain
49	chr6:80714600-80715400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr6:80714600-80715400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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