Variant report

Variant	rs55786861
Chromosome Location	chr6:31521325-31521326
allele	G/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:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:31517592..31522537-chr6:31564964..31567939,4	MCF-7	breast:
2	chr6:31513079..31516854-chr6:31518993..31522440,4	K562	blood:
3	chr6:31519386..31522275-chr6:31529123..31531793,2	K562	blood:
4	chr6:31521056..31523879-chr6:31632224..31633754,2	K562	blood:
5	chr6:31520347..31523947-chr6:31524604..31528715,4	K562	blood:
6	chr6:31519629..31522275-chr6:31530293..31533354,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LTA-1	chr6:31521234-31522729	NONHSAT108788

No data

Variant related genes	Relation type
ENSG00000254870	Chromatin interaction
ENSG00000213760	Chromatin interaction
ENSG00000204498	Chromatin interaction
ENSG00000204435	Chromatin interaction
ENSG00000204438	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs35595439	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs41273248	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55799418	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55932544	1.00[ASN][1000 genomes]
rs56061694	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56127727	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56229298	1.00[ASN][1000 genomes]
rs61740977	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs915653	1.00[AMR][1000 genomes];1.00[ASN][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	nsv1015372	chr6:30704734-31582152	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
2	nsv538173	chr6:30704734-31582152	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
3	esv2759414	chr6:31028290-31542308	Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	151 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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
7	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
8	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
9	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
10	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
11	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
12	nsv1018463	chr6:31337336-31525275	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	104 gene(s)	inside rSNPs	diseases
13	nsv538189	chr6:31337336-31525275	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	104 gene(s)	inside rSNPs	diseases
14	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
15	esv2757162	chr6:31353329-31542308	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	99 gene(s)	inside rSNPs	diseases
16	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
17	nsv432877	chr6:31412961-31528690	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases
18	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
19	nsv470809	chr6:31496915-31544189	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	76 gene(s)	inside rSNPs	diseases
20	nsv884417	chr6:31515078-31525354	Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:31515600-31525400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:31515600-31525600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:31516000-31526400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:31516000-31535800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr6:31516200-31522400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr6:31516200-31525800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:31516400-31522000	Weak transcription	Esophagus	oesophagus
8	chr6:31516400-31522800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:31516400-31523600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr6:31516400-31523800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:31516400-31523800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:31516400-31523800	Weak transcription	Ovary	ovary
13	chr6:31516400-31523800	Weak transcription	Pancreas	Pancrea
14	chr6:31516400-31525400	Weak transcription	Right Atrium	heart
15	chr6:31516400-31526200	Weak transcription	Small Intestine	intestine
16	chr6:31516400-31526200	Weak transcription	NH-A	brain
17	chr6:31516400-31526200	Weak transcription	NHDF-Ad	bronchial
18	chr6:31516400-31526400	Weak transcription	A549	lung
19	chr6:31516400-31526600	Weak transcription	Psoas Muscle	Psoas
20	chr6:31516400-31527200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:31516400-31533200	Weak transcription	Fetal Brain Male	brain
22	chr6:31516600-31521800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:31516600-31522200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:31516600-31522400	Strong transcription	Fetal Intestine Small	intestine
25	chr6:31516600-31523800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:31516600-31523800	Weak transcription	Spleen	Spleen
27	chr6:31516600-31525200	Strong transcription	Fetal Muscle Leg	muscle
28	chr6:31516600-31529200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:31516800-31522200	Strong transcription	Fetal Stomach	stomach
30	chr6:31516800-31523800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr6:31516800-31523800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr6:31516800-31523800	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr6:31516800-31523800	Weak transcription	HUVEC	blood vessel
34	chr6:31516800-31530800	Weak transcription	Stomach Mucosa	stomach
35	chr6:31516800-31531000	Weak transcription	Fetal Kidney	kidney
36	chr6:31517000-31522000	Strong transcription	Osteobl	bone
37	chr6:31517000-31523600	Weak transcription	Brain Substantia Nigra	brain
38	chr6:31517000-31524000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr6:31517000-31525200	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr6:31517000-31525400	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr6:31517000-31526600	Weak transcription	Fetal Heart	heart
42	chr6:31517000-31527400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr6:31517400-31522000	Strong transcription	Fetal Intestine Large	intestine
44	chr6:31517400-31525400	Strong transcription	Placenta	Placenta
45	chr6:31517600-31523800	Weak transcription	NHEK	skin
46	chr6:31517600-31525200	Weak transcription	NHLF	lung
47	chr6:31517800-31524000	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr6:31517800-31525400	Weak transcription	Left Ventricle	heart
49	chr6:31517800-31527200	Weak transcription	HMEC	breast
50	chr6:31518200-31521400	Weak transcription	Cortex derived primary cultured neurospheres	brain

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