Variant report

Variant	rs62623458
Chromosome Location	chr6:27661917-27661918
allele	A/C
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:20)
LncRNA
region (count:9)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:20 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:27661665..27662337-chr6:27720402..27720938,2	MCF-7	breast:
2	chr6:26054155..26056793-chr6:27661780..27663852,2	MCF-7	breast:
3	chr6:27658926..27663446-chr6:27685398..27690588,6	K562	blood:
4	chr6:27100391..27103275-chr6:27661781..27664479,3	K562	blood:
5	chr6:27651170..27656145-chr6:27660253..27663653,4	MCF-7	breast:
6	chr6:27590776..27592562-chr6:27661680..27663552,2	MCF-7	breast:
7	chr6:27661399..27663799-chr6:27664607..27667603,2	MCF-7	breast:
8	chr6:27661331..27663089-chr6:27665763..27668347,2	K562	blood:
9	chr6:27659790..27663314-chr6:27665578..27668905,6	K562	blood:
10	chr6:27179126..27181346-chr6:27660529..27662958,2	K562	blood:
11	chr6:27653789..27659338-chr6:27659392..27663401,13	K562	blood:
12	chr6:27660759..27663752-chr6:27861076..27863812,2	K562	blood:
13	chr6:27660759..27663376-chr6:27861041..27863812,2	K562	blood:
14	chr6:27651230..27653525-chr6:27660393..27663354,2	MCF-7	breast:
15	chr6:27661232..27663489-chr6:27678201..27680638,2	K562	blood:
16	chr6:27661478..27663340-chr6:27680780..27682655,2	K562	blood:
17	chr6:27661606..27663243-chr6:27719625..27721150,2	K562	blood:
18	chr6:27659151..27662876-chr6:27687364..27691190,4	K562	blood:
19	chr6:27660493..27662208-chr6:27687324..27689056,2	MCF-7	breast:
20	chr6:27661813..27662703-chr6:27719579..27720188,2	MCF-7	breast:

(count:9 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HIST1H2AI-3	chr6:27661858-27662005	ENSG00000246046
2	lnc-HIST1H2AI-3	chr6:27661814-27662285	XLOC_005219
3	lnc-HIST1H2AI-3	chr6:27661814-27662005	XLOC_005219
4	lnc-HIST1H2AI-3	chr6:27661814-27662285	XLOC_005219
5	lnc-HIST1H2AI-3	chr6:27661865-27662005	XLOC_005219
6	lnc-HIST1H2AI-3	chr6:27661843-27662285	NONHSAT108397
7	lnc-HIST1H2AI-3	chr6:27661814-27662285	NONHSAT108394
8	lnc-HIST1H2AI-3	chr6:27661814-27662285	NONHSAT108395
9	lnc-HIST1H2AI-3	chr6:27661858-27662005	NONHSAT108398

No data

Variant related genes	Relation type
ENSG00000187837	Chromatin interaction
ENSG00000196331	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000124635	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12333239	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16867923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28399157	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9461391	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468176	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468194	1.00[AMR][1000 genomes]
rs9468235	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv883510	chr6:27550712-27730064	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	nsv1023673	chr6:27570731-27688782	Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv830618	chr6:27593274-27789605	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	143 gene(s)	inside rSNPs	diseases
5	nsv1031337	chr6:27596676-27734884	Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
6	nsv518945	chr6:27634640-27668013	Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv437481	chr6:27655096-27683572	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv601204	chr6:27655564-27689502	Strong transcription Active TSS Genic enhancers Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
9	nsv1023808	chr6:27656049-27674354	Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
10	nsv601205	chr6:27656255-27730064	Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27660800-27662200	Active TSS	Ovary	ovary
2	chr6:27660800-27662400	Active TSS	H1 Cell Line	embryonic stem cell
3	chr6:27660800-27662800	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr6:27660800-27663000	Active TSS	HUES64 Cell Line	embryonic stem cell
5	chr6:27660800-27663200	Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr6:27660800-27663400	Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr6:27661000-27662200	Active TSS	GM12878-XiMat	blood
8	chr6:27661000-27662400	Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr6:27661000-27662400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:27661000-27662400	Active TSS	K562	blood
11	chr6:27661000-27662600	Active TSS	A549	lung
12	chr6:27661000-27662800	Active TSS	iPS-18 Cell Line	embryonic stem cell
13	chr6:27661000-27663000	Active TSS	iPS-15b Cell Line	embryonic stem cell
14	chr6:27661000-27663200	Active TSS	H9 Cell Line	embryonic stem cell
15	chr6:27661000-27663200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:27661200-27662000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:27661200-27662000	Active TSS	Fetal Adrenal Gland	Adrenal Gland
18	chr6:27661200-27662200	Active TSS	Primary T cells from cord blood	blood
19	chr6:27661200-27662200	Active TSS	Primary T helper cells PMA-I stimulated	--
20	chr6:27661200-27662200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
21	chr6:27661200-27662200	Active TSS	Duodenum Mucosa	Duodenum
22	chr6:27661200-27662200	Active TSS	Fetal Brain Female	brain
23	chr6:27661200-27662200	Active TSS	Hela-S3	cervix
24	chr6:27661200-27662400	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:27661200-27662400	Active TSS	Breast Myoepithelial Primary Cells	Breast
26	chr6:27661200-27662400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
27	chr6:27661200-27662400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
28	chr6:27661200-27662400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr6:27661200-27662400	Active TSS	Fetal Intestine Large	intestine
30	chr6:27661200-27662400	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
31	chr6:27661200-27662400	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
32	chr6:27661200-27662600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:27661200-27662600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
34	chr6:27661200-27662600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr6:27661200-27662800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr6:27661200-27662800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr6:27661200-27662800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:27661200-27662800	Active TSS	Fetal Intestine Small	intestine
39	chr6:27661200-27663000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:27661200-27663000	Active TSS	HMEC	breast
41	chr6:27661200-27663200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr6:27661200-27663200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:27661400-27662000	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
44	chr6:27661400-27662000	Active TSS	Rectal Mucosa Donor 29	rectum
45	chr6:27661400-27662000	Active TSS	Right Ventricle	heart
46	chr6:27661400-27662200	Active TSS	Primary B cells from peripheral blood	blood
47	chr6:27661400-27662200	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:27661400-27662200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
49	chr6:27661400-27662200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr6:27661400-27662200	Active TSS	Primary T killer memory cells from peripheral blood	blood

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