Variant report

Variant	rs73751826
Chromosome Location	chr6:76059983-76059984
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:76058715..76060235-chr6:76071941..76074343,2	MCF-7	breast:
2	chr6:76049155..76051886-chr6:76059205..76061282,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SENP6-11	chr6:76059929-76060176	l_3206_chr6:76057402-76060176_brain

Variant related genes	Relation type
ENSG00000118407	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11961252	1.00[AMR][1000 genomes]
rs1203221	1.00[AMR][1000 genomes]
rs171262	1.00[AMR][1000 genomes]
rs171266	1.00[AMR][1000 genomes]
rs173279	1.00[AMR][1000 genomes]
rs181179	1.00[AMR][1000 genomes]
rs240364	1.00[AMR][1000 genomes]
rs240372	1.00[AMR][1000 genomes]
rs240373	1.00[AMR][1000 genomes]
rs240391	1.00[AMR][1000 genomes]
rs240407	1.00[AMR][1000 genomes]
rs240434	1.00[AMR][1000 genomes]
rs240436	1.00[AMR][1000 genomes]
rs240718	1.00[AMR][1000 genomes]
rs240742	1.00[AMR][1000 genomes]
rs2703709	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2703713	1.00[AMR][1000 genomes]
rs2808192	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2808205	1.00[AMR][1000 genomes]
rs2842449	1.00[AMR][1000 genomes]
rs2842454	1.00[AMR][1000 genomes]
rs2842460	1.00[AMR][1000 genomes]
rs2951941	1.00[AMR][1000 genomes]
rs2998372	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2998373	1.00[AMR][1000 genomes]
rs2998375	1.00[AMR][1000 genomes]
rs2998378	1.00[AMR][1000 genomes]
rs34807169	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs428406	1.00[AMR][1000 genomes]
rs471960	1.00[AMR][1000 genomes]
rs480888	1.00[AMR][1000 genomes]
rs55862072	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs578715	1.00[AMR][1000 genomes]
rs58299431	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58347254	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs588100	1.00[AMR][1000 genomes]
rs683406	1.00[AMR][1000 genomes]
rs73751107	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73751108	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73751109	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73751816	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73751817	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73751820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73751824	0.98[AFR][1000 genomes];1.00[AMR][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	nsv1016804	chr6:75775846-76188585	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv538310	chr6:75775846-76188585	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1024079	chr6:75848556-76238519	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv1027915	chr6:75893542-76510113	Active TSS Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
5	nsv538311	chr6:75893542-76510113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
6	nsv830698	chr6:75968810-76115592	Strong transcription Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	nsv1022428	chr6:76023118-76575620	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
8	nsv538312	chr6:76023118-76575620	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
9	nsv1032245	chr6:76045537-76545703	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	47 gene(s)	inside rSNPs	diseases
10	nsv538313	chr6:76045537-76545703	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:76044600-76072800	Weak transcription	A549	lung
2	chr6:76057200-76060000	Enhancers	Fetal Lung	lung
3	chr6:76058200-76060600	Enhancers	Fetal Heart	heart
4	chr6:76058400-76060000	Flanking Active TSS	Stomach Smooth Muscle	stomach
5	chr6:76058800-76060000	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr6:76058800-76060000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:76059000-76060000	Active TSS	ES-I3 Cell Line	embryonic stem cell
8	chr6:76059000-76060000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
9	chr6:76059000-76060000	Active TSS	H1 Cell Line	embryonic stem cell
10	chr6:76059000-76060000	Active TSS	H9 Cell Line	embryonic stem cell
11	chr6:76059000-76060000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:76059000-76060000	Active TSS	iPS-20b Cell Line	embryonic stem cell
13	chr6:76059000-76060000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr6:76059200-76060200	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
15	chr6:76059400-76060000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr6:76059400-76060000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:76059400-76060200	Enhancers	Placenta	Placenta
18	chr6:76059600-76060000	Enhancers	Liver	Liver
19	chr6:76059600-76061200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr6:76059600-76063000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:76059600-76063000	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr6:76059600-76063200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:76059600-76063200	Weak transcription	Gastric	stomach
24	chr6:76059600-76067000	Weak transcription	Right Ventricle	heart
25	chr6:76059600-76068600	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:76059600-76070200	Weak transcription	Aorta	Aorta
27	chr6:76059600-76074000	Weak transcription	Ovary	ovary
28	chr6:76059600-76078600	Weak transcription	Psoas Muscle	Psoas
29	chr6:76059600-76079600	Weak transcription	Lung	lung
30	chr6:76059800-76060000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr6:76059800-76060000	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:76059800-76060000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr6:76059800-76060000	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
34	chr6:76059800-76060000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
35	chr6:76059800-76060000	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr6:76059800-76060000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr6:76059800-76060000	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr6:76059800-76060000	Enhancers	Brain Anterior Caudate	brain
39	chr6:76059800-76060000	Enhancers	Rectal Smooth Muscle	rectum
40	chr6:76059800-76060000	Enhancers	NH-A	brain
41	chr6:76059800-76060000	Bivalent Enhancer	Osteobl	bone
42	chr6:76059800-76060200	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
43	chr6:76059800-76063000	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:76059800-76063000	Weak transcription	Left Ventricle	heart
45	chr6:76059800-76064200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:76059800-76064600	Weak transcription	Fetal Stomach	stomach
47	chr6:76059800-76066800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr6:76059800-76066800	Weak transcription	Fetal Muscle Trunk	muscle
49	chr6:76059800-76069400	Weak transcription	Colon Smooth Muscle	Colon
50	chr6:76059800-76074600	Weak transcription	Pancreas	Pancrea

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