Variant report

Variant	rs9404941
Chromosome Location	chr6:31622816-31622817
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYBL2	chr6:31622600-31624667	HepG2	liver:	n/a	n/a
2	POLR2A	chr6:31619380-31634380	HepG2	liver:	n/a	n/a
3	MBD4	chr6:31622665-31624640	HepG2	liver:	n/a	n/a
4	POLR2A	chr6:31622715-31623025	K562	blood:	n/a	n/a
5	MBD4	chr6:31622806-31624006	HepG2	liver:	n/a	n/a
6	POLR2A	chr6:31622625-31623171	K562	blood:	n/a	n/a
7	POLR2A	chr6:31622582-31624398	SK-N-MC	brain:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:31617566..31622844-chr6:31826455..31835211,65	K562	blood:
2	chr6:31617566..31630444-chr6:31823885..31836000,84	K562	blood:
3	chr6:31612905..31614877-chr6:31621124..31623765,2	MCF-7	breast:
4	chr6:31620739..31623442-chr6:31750369..31752880,2	MCF-7	breast:
5	chr6:31507451..31516055-chr6:31617949..31624791,11	MCF-7	breast:
6	chr6:31620775..31623476-chr6:31707593..31710385,2	MCF-7	breast:
7	chr6:31621359..31624108-chr6:31697605..31699324,2	MCF-7	breast:
8	chr6:31507406..31516955-chr6:31615847..31623354,26	K562	blood:

No data

Variant related genes	Relation type
APOM	TF binding region
C6orf47-AS1	TF binding region
BAG6	TF binding region
ENSG00000204498	Chromatin interaction
ENSG00000204463	Chromatin interaction
ENSG00000204386	Chromatin interaction
ENSG00000213760	Chromatin interaction
ENSG00000204394	Chromatin interaction
ENSG00000255152	Chromatin interaction
ENSG00000204410	Chromatin interaction
ENSG00000213722	Chromatin interaction
ENSG00000204385	Chromatin interaction
ENSG00000234006	Chromatin interaction
ENSG00000198563	Chromatin interaction
ENSG00000254870	Chromatin interaction
ENSG00000265236	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs2280801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2295663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28732150	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28732154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28732157	0.86[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28732158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28895016	0.82[EUR][1000 genomes]
rs3131384	0.82[ASN][1000 genomes]
rs3993757	0.93[ASN][1000 genomes]
rs9368699	1.00[AMR][1000 genomes]
rs9378164	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9378200	0.82[EUR][1000 genomes]
rs9380266	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9391731	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv601609	chr6:31280101-31799786	Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Enhancers Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	332 gene(s)	inside rSNPs	diseases
2	nsv601610	chr6:31280101-31960770	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	370 gene(s)	inside rSNPs	diseases
3	nsv601628	chr6:31280327-31990098	Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
4	nsv601629	chr6:31280327-31996185	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
5	nsv601630	chr6:31280327-32011317	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
6	nsv601631	chr6:31280327-32017540	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer 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	378 gene(s)	inside rSNPs	diseases
7	nsv1023939	chr6:31325961-32026747	Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
8	nsv538188	chr6:31325961-32026747	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
9	nsv432868	chr6:31338844-31721033	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	250 gene(s)	inside rSNPs	diseases
10	nsv1021747	chr6:31386219-31907266	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	330 gene(s)	inside rSNPs	diseases
11	nsv830627	chr6:31496214-31659950	Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
12	nsv884418	chr6:31525448-31741078	Active TSS Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	206 gene(s)	inside rSNPs	diseases
13	nsv1033154	chr6:31550614-32009410	Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	326 gene(s)	inside rSNPs	diseases
14	nsv462871	chr6:31575276-31632134	Strong transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	133 gene(s)	inside rSNPs	diseases
15	nsv601942	chr6:31575276-31632134	Flanking Active TSS Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	133 gene(s)	inside rSNPs	diseases
16	nsv884419	chr6:31585000-31632651	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	138 gene(s)	inside rSNPs	diseases
17	nsv884420	chr6:31586827-31632651	Genic enhancers Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	138 gene(s)	inside rSNPs	diseases
18	nsv884421	chr6:31588151-31631907	Active TSS Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	129 gene(s)	inside rSNPs	diseases
19	nsv884422	chr6:31592524-31631907	Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	83 gene(s)	inside rSNPs	diseases
20	nsv884424	chr6:31593729-31632651	Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	93 gene(s)	inside rSNPs	diseases
21	nsv1017945	chr6:31609641-32481240	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
22	esv3428142	chr6:31615800-31881809	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	257 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:31621200-31623000	Flanking Active TSS	HepG2	liver
2	chr6:31621200-31623400	Weak transcription	Small Intestine	intestine
3	chr6:31621200-31623600	Weak transcription	Gastric	stomach
4	chr6:31621200-31623800	Weak transcription	Lung	lung
5	chr6:31621200-31625000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:31621200-31625000	Weak transcription	Ovary	ovary
7	chr6:31621400-31623800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:31621400-31623800	Weak transcription	Aorta	Aorta
9	chr6:31621400-31624000	Enhancers	Fetal Intestine Large	intestine
10	chr6:31621400-31624200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:31621400-31627600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr6:31621400-31627600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr6:31621600-31623000	Weak transcription	Brain Hippocampus Middle	brain
14	chr6:31621600-31623200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:31621600-31623200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:31621600-31623400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:31621600-31623400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr6:31621600-31623400	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr6:31621600-31623400	Weak transcription	Thymus	Thymus
20	chr6:31621600-31623400	Weak transcription	Spleen	Spleen
21	chr6:31621600-31623400	Weak transcription	HMEC	breast
22	chr6:31621600-31623400	Weak transcription	NHLF	lung
23	chr6:31621600-31623600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:31621600-31623600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:31621600-31623600	Weak transcription	Brain Substantia Nigra	brain
26	chr6:31621600-31623600	Weak transcription	Colonic Mucosa	Colon
27	chr6:31621600-31623600	Weak transcription	GM12878-XiMat	blood
28	chr6:31621600-31623800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr6:31621600-31623800	Weak transcription	Fetal Kidney	kidney
30	chr6:31621600-31623800	Weak transcription	Left Ventricle	heart
31	chr6:31621600-31623800	Weak transcription	Rectal Smooth Muscle	rectum
32	chr6:31621600-31624200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr6:31621600-31624200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:31621600-31624200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr6:31621600-31624200	Weak transcription	Brain Angular Gyrus	brain
36	chr6:31621600-31624200	Weak transcription	Brain Cingulate Gyrus	brain
37	chr6:31621600-31624400	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr6:31621600-31624400	Weak transcription	Esophagus	oesophagus
39	chr6:31621600-31624800	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr6:31621600-31625000	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr6:31621600-31625000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr6:31621600-31625000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr6:31621600-31625000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr6:31621600-31625000	Weak transcription	Colon Smooth Muscle	Colon
45	chr6:31621600-31625000	Weak transcription	Fetal Lung	lung
46	chr6:31621600-31625000	Weak transcription	Stomach Mucosa	stomach
47	chr6:31621600-31625000	Weak transcription	NH-A	brain
48	chr6:31621600-31625200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr6:31621600-31625200	Weak transcription	Right Ventricle	heart
50	chr6:31621600-31625400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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