Variant report

Variant	rs16891407
Chromosome Location	chr6:26206299-26206300
allele	A/T
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:48)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:48 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:7669904..7672595-chr6:26204926..26206541,2	K562	blood:
2	chr6:26204334..26206803-chr8:99304596..99307549,2	MCF-7	breast:
3	chr12:18949034..18952019-chr6:26204862..26207365,2	K562	blood:
4	chr6:26204904..26206992-chr9:114391613..114393615,2	MCF-7	breast:
5	chr6:26203848..26208105-chr6:27113189..27116345,6	MCF-7	breast:
6	chr12:57479708..57482398-chr6:26204786..26207325,2	MCF-7	breast:
7	chr6:26204869..26207610-chr6:27791884..27793425,2	K562	blood:
8	chr17:57921658..57923272-chr6:26206154..26207870,2	MCF-7	breast:
9	chr5:137801364..137803225-chr6:26205774..26207434,2	K562	blood:
10	chr15:65596125..65598793-chr6:26205773..26207999,2	MCF-7	breast:
11	chr6:26205296..26207638-chr6:26537665..26539473,2	K562	blood:
12	chr6:26205255..26207547-chr6:26985458..26988119,2	K562	blood:
13	chr6:26196890..26209578-chr6:27096615..27108451,46	K562	blood:
14	chr11:63951584..63953989-chr6:26204778..26206338,2	MCF-7	breast:
15	chr6:26205654..26207925-chr6:26382862..26384619,2	K562	blood:
16	chr6:26202461..26206307-chr6:27111685..27116147,8	K562	blood:
17	chr6:26203030..26208239-chr6:27858574..27863151,12	MCF-7	breast:
18	chr6:26205087..26206759-chr6:27091982..27094025,2	MCF-7	breast:
19	chr6:26205440..26207068-chr9:83452129..83453649,2	MCF-7	breast:
20	chr2:238394029..238396506-chr6:26203344..26206529,3	MCF-7	breast:
21	chr6:26195729..26208268-chr6:27092660..27105612,50	K562	blood:
22	chr17:41463769..41466376-chr6:26204076..26206322,2	K562	blood:
23	chr6:26203843..26208171-chr6:27113293..27116172,4	MCF-7	breast:
24	chr6:26202344..26207712-chr6:27112121..27116672,11	K562	blood:
25	chr6:26203687..26207464-chr6:26521178..26524047,5	K562	blood:
26	chr6:26200995..26208208-chr6:27098278..27102268,10	MCF-7	breast:
27	chr6:26204948..26206758-chr7:106208819..106211188,2	K562	blood:
28	chr6:26204792..26206368-chr6:27774871..27776678,2	MCF-7	breast:
29	chr6:26204311..26207640-chr6:27105695..27109383,4	K562	blood:
30	chr11:65269357..65270987-chr6:26205504..26207740,2	K562	blood:
31	chr6:26205006..26206607-chr6:27116862..27119170,2	K562	blood:
32	chr6:26203034..26206484-chr6:27789284..27793104,6	MCF-7	breast:
33	chr6:26204681..26207115-chr6:27805289..27807793,3	MCF-7	breast:
34	chr6:26206133..26208604-chr6:27861134..27862870,2	K562	blood:
35	chr19:55770876..55771527-chr6:26205546..26206487,2	Hela-S3	cervix:
36	chr20:52772678..52774287-chr6:26204337..26206417,2	MCF-7	breast:
37	chr6:26203418..26208290-chr6:27773529..27778557,7	MCF-7	breast:
38	chr6:26204708..26206864-chr8:101732087..101734404,2	MCF-7	breast:
39	chr12:52448166..52449118-chr6:26205606..26206413,2	Hela-S3	cervix:
40	chr5:89703591..89705335-chr6:26204580..26206448,2	K562	blood:
41	chr6:26197916..26207803-chr6:27772547..27779655,13	K562	blood:
42	chr6:26205953..26207614-chr6:26606621..26609414,2	K562	blood:
43	chr5:137800894..137803225-chr6:26204565..26207434,2	K562	blood:
44	chr6:26204679..26206586-chr6:27790923..27793517,4	K562	blood:
45	chr6:26204834..26207214-chr6:30523084..30526316,3	MCF-7	breast:
46	chr6:26205631..26208753-chr6:26584757..26587619,3	K562	blood:
47	chr6:26205814..26207587-chr6:27777520..27779296,2	MCF-7	breast:
48	chr6:26205624..26207427-chr6:26554125..26557107,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000019186	Chromatin interaction
ENSG00000166881	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000104361	Chromatin interaction
ENSG00000153140	Chromatin interaction
ENSG00000197238	Chromatin interaction
ENSG00000196747	Chromatin interaction
ENSG00000115648	Chromatin interaction
ENSG00000124508	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000204590	Chromatin interaction
ENSG00000204173	Chromatin interaction
ENSG00000265565	Chromatin interaction
ENSG00000233224	Chromatin interaction
ENSG00000197153	Chromatin interaction
ENSG00000188825	Chromatin interaction
ENSG00000196331	Chromatin interaction
ENSG00000217862	Chromatin interaction
ENSG00000233822	Chromatin interaction
ENSG00000228223	Chromatin interaction
ENSG00000120738	Chromatin interaction
ENSG00000198339	Chromatin interaction
ENSG00000070756	Chromatin interaction
ENSG00000185130	Chromatin interaction
ENSG00000200156	Chromatin interaction
ENSG00000251562	Chromatin interaction
ENSG00000168439	Chromatin interaction
ENSG00000182952	Chromatin interaction
ENSG00000203813	Chromatin interaction
ENSG00000238621	Chromatin interaction
ENSG00000204576	Chromatin interaction
ENSG00000124635	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000184348	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11751062	0.90[EUR][1000 genomes]
rs11751812	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11753084	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11753717	0.90[EUR][1000 genomes]
rs11753837	1.00[CEU][hapmap];0.85[JPT][hapmap];0.99[EUR][1000 genomes]
rs11754140	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11754368	0.90[EUR][1000 genomes]
rs11755618	0.90[EUR][1000 genomes]
rs11757549	0.90[EUR][1000 genomes]
rs11757724	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11759758	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11760140	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16891375	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16891378	0.85[JPT][hapmap]
rs16891464	0.87[EUR][1000 genomes]
rs1981019	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2179516	0.87[EUR][1000 genomes]
rs41266811	0.90[EUR][1000 genomes]
rs56119218	0.90[EUR][1000 genomes]
rs7775052	1.00[CEU][hapmap];0.85[JPT][hapmap];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1030351	chr6:25813178-26352046	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1189 gene(s)	inside rSNPs	diseases
4	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
5	nsv1025237	chr6:25874326-26280867	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
6	nsv538163	chr6:25874326-26280867	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
7	nsv428137	chr6:25987413-26351920	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1181 gene(s)	inside rSNPs	diseases
8	nsv916992	chr6:25991630-26280921	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1159 gene(s)	inside rSNPs	diseases
9	nsv1028232	chr6:26005449-26319756	Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1171 gene(s)	inside rSNPs	diseases
10	nsv870314	chr6:26008435-26280807	Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1151 gene(s)	inside rSNPs	diseases
11	nsv1023457	chr6:26014014-26305407	Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1170 gene(s)	inside rSNPs	diseases
12	nsv1025493	chr6:26026870-26223838	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1001 gene(s)	inside rSNPs	diseases
13	nsv1023979	chr6:26026870-26287399	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1113 gene(s)	inside rSNPs	diseases
14	nsv1015782	chr6:26026870-26323895	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1114 gene(s)	inside rSNPs	diseases
15	nsv1018665	chr6:26026870-26352046	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1116 gene(s)	inside rSNPs	diseases
16	nsv482348	chr6:26082709-26261136	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	799 gene(s)	inside rSNPs	diseases
17	nsv518431	chr6:26148311-26211368	Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	521 gene(s)	inside rSNPs	diseases
18	nsv526456	chr6:26148311-26211368	Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	521 gene(s)	inside rSNPs	diseases
19	nsv883490	chr6:26172219-26231608	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	316 gene(s)	inside rSNPs	diseases
20	nsv1021294	chr6:26190316-26246784	Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	309 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16891407	HIST1H3E	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26203400-26206400	Active TSS	HUES6 Cell Line	embryonic stem cell
2	chr6:26203400-26207200	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:26203400-26207600	Active TSS	Thymus	Thymus
4	chr6:26203400-26207800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:26203600-26206400	Active TSS	K562	blood
6	chr6:26203600-26207000	Active TSS	H9 Cell Line	embryonic stem cell
7	chr6:26203800-26207000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:26203800-26207000	Active TSS	iPS-18 Cell Line	embryonic stem cell
9	chr6:26203800-26207000	Active TSS	Fetal Kidney	kidney
10	chr6:26203800-26207200	Active TSS	HUES48 Cell Line	embryonic stem cell
11	chr6:26203800-26207200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:26203800-26207600	Active TSS	H1 Cell Line	embryonic stem cell
13	chr6:26203800-26207600	Active TSS	HUES64 Cell Line	embryonic stem cell
14	chr6:26204000-26206600	Active TSS	Brain Angular Gyrus	brain
15	chr6:26204000-26206600	Active TSS	Colon Smooth Muscle	Colon
16	chr6:26204000-26206600	Bivalent/Poised TSS	Psoas Muscle	Psoas
17	chr6:26204000-26206800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:26204000-26206800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:26204000-26206800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr6:26204000-26206800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:26204000-26206800	Active TSS	Right Ventricle	heart
22	chr6:26204000-26206800	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
23	chr6:26204000-26207000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:26204000-26207000	Active TSS	iPS-15b Cell Line	embryonic stem cell
25	chr6:26204000-26207200	Active TSS	iPS-20b Cell Line	embryonic stem cell
26	chr6:26204000-26207200	Active TSS	Brain Inferior Temporal Lobe	brain
27	chr6:26204000-26207200	Active TSS	Rectal Mucosa Donor 29	rectum
28	chr6:26204000-26207200	Active TSS	NH-A	brain
29	chr6:26204000-26207800	Active TSS	Brain Anterior Caudate	brain
30	chr6:26204200-26206400	Active TSS	Esophagus	oesophagus
31	chr6:26204200-26206400	Active TSS	HSMM	muscle
32	chr6:26204200-26206600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
33	chr6:26204200-26206600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:26204200-26206600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr6:26204200-26206600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr6:26204200-26206600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:26204200-26206600	Active TSS	Fetal Intestine Small	intestine
38	chr6:26204200-26206600	Active TSS	Fetal Lung	lung
39	chr6:26204200-26206600	Active TSS	NHDF-Ad	bronchial
40	chr6:26204200-26206800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
41	chr6:26204200-26206800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:26204200-26206800	Active TSS	Duodenum Smooth Muscle	Duodenum
43	chr6:26204200-26206800	Active TSS	Fetal Intestine Large	intestine
44	chr6:26204200-26206800	Active TSS	Left Ventricle	heart
45	chr6:26204200-26206800	Active TSS	Pancreas	Pancrea
46	chr6:26204200-26206800	Active TSS	Small Intestine	intestine
47	chr6:26204200-26207000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr6:26204200-26207000	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:26204200-26207000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
50	chr6:26204200-26207000	Active TSS	Brain Cingulate Gyrus	brain

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