Variant report

Variant	rs28693845
Chromosome Location	chr7:100737872-100737873
allele	C/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:10)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:100737471..100742111-chr7:100770022..100773213,6	MCF-7	breast:
2	chr7:100737739..100738809-chr7:100780869..100782138,8	MCF-7	breast:
3	chr7:100737789..100738771-chr7:100781346..100782175,4	MCF-7	breast:
4	chr7:100737701..100741221-chr7:100750993..100753482,3	MCF-7	breast:
5	chr7:100736767..100739121-chr7:100807992..100810587,2	K562	blood:
6	chr7:100736317..100739665-chr7:100808472..100811573,3	MCF-7	breast:
7	chr7:100486764..100489719-chr7:100736778..100738797,2	K562	blood:
8	chr7:100737548..100738399-chr7:100812828..100813682,3	MCF-7	breast:
9	chr7:100486587..100489014-chr7:100735698..100737931,3	MCF-7	breast:
10	chr7:100737822..100738831-chr7:100786945..100787929,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRIM56-1	chr7:100737328-100741248	ENSG00000260336.1

No data

Variant related genes	Relation type
ENSG00000176125	Chromatin interaction
ENSG00000106366	Chromatin interaction
ENSG00000128564	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10230363	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10233905	1.00[ASW][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10238656	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10275377	0.84[YRI][hapmap]
rs10900	1.00[ASW][hapmap];0.98[LWK][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11546152	1.00[ASN][1000 genomes]
rs2227666	1.00[ASN][1000 genomes]
rs35627324	1.00[CHD][hapmap]
rs56158981	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56275099	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61520366	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61730716	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61730718	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7241	1.00[ASN][1000 genomes]
rs73712063	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73712067	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1832517	chr7:100355490-100749246	Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
2	esv2758125	chr7:100355490-100749246	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
3	esv2759547	chr7:100355490-100749246	Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
4	esv1826021	chr7:100525848-100749246	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	esv1846644	chr7:100525848-100749246	Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	esv1822460	chr7:100606044-100749246	Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
7	nsv427796	chr7:100606044-100749246	Strong transcription Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
8	nsv428181	chr7:100606044-100749246	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
9	nsv831074	chr7:100606051-100745532	Bivalent Enhancer Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
10	nsv1031942	chr7:100606734-100788660	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
11	esv1833777	chr7:100632790-100800131	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
12	nsv1033081	chr7:100669629-100771824	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
13	nsv831075	chr7:100692297-100917018	Bivalent/Poised TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
14	nsv933653	chr7:100701931-101515782	Active TSS ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Weak transcription Flanking Active TSS 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	107 gene(s)	inside rSNPs	diseases
15	nsv1030604	chr7:100717732-101223465	Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
16	nsv5874	chr7:100734048-100744472	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:100729400-100742600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr7:100729400-100742600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr7:100729400-100742800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr7:100729400-100742800	Weak transcription	Brain Substantia Nigra	brain
5	chr7:100729600-100742800	Weak transcription	Brain Angular Gyrus	brain
6	chr7:100730400-100738000	Weak transcription	HepG2	liver
7	chr7:100730400-100742600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr7:100730600-100742800	Weak transcription	Brain Anterior Caudate	brain
9	chr7:100730600-100742800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr7:100730800-100738000	Weak transcription	Stomach Mucosa	stomach
11	chr7:100730800-100743200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr7:100731200-100742800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr7:100732400-100742800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr7:100732400-100743000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr7:100732600-100742400	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr7:100732600-100742400	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr7:100732600-100742600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr7:100732800-100742800	Weak transcription	Colon Smooth Muscle	Colon
19	chr7:100733000-100741600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr7:100733000-100742600	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr7:100733000-100743400	Weak transcription	Right Atrium	heart
22	chr7:100733000-100743400	Weak transcription	GM12878-XiMat	blood
23	chr7:100733000-100743600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr7:100733000-100743600	Weak transcription	Gastric	stomach
25	chr7:100733200-100742400	Weak transcription	Left Ventricle	heart
26	chr7:100733400-100742600	Weak transcription	Brain Hippocampus Middle	brain
27	chr7:100733400-100742800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr7:100733400-100743200	Weak transcription	Pancreas	Pancrea
29	chr7:100733400-100743600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr7:100733400-100743600	Weak transcription	Esophagus	oesophagus
31	chr7:100733400-100743600	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr7:100733600-100743000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr7:100733600-100755400	Weak transcription	Aorta	Aorta
34	chr7:100734400-100738400	Weak transcription	Liver	Liver
35	chr7:100734600-100738400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr7:100734600-100739200	Weak transcription	Dnd41	blood
37	chr7:100734600-100739600	Weak transcription	Duodenum Mucosa	Duodenum
38	chr7:100734600-100742200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr7:100734600-100742400	Weak transcription	Hela-S3	cervix
40	chr7:100734600-100742800	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr7:100734600-100743000	Weak transcription	Lung	lung
42	chr7:100734600-100743400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr7:100734600-100743600	Weak transcription	Colonic Mucosa	Colon
44	chr7:100734800-100738200	Weak transcription	Primary T cells from cord blood	blood
45	chr7:100734800-100738200	Weak transcription	Fetal Thymus	thymus
46	chr7:100734800-100738600	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr7:100734800-100738800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr7:100734800-100741600	Weak transcription	Right Ventricle	heart
49	chr7:100734800-100742400	Weak transcription	Stomach Smooth Muscle	stomach
50	chr7:100734800-100742600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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