Variant report

Variant	rs11890407
Chromosome Location	chr2:97621647-97621648
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:97480973..97483903-chr2:97621623..97628750,6	MCF-7	breast:
2	chr2:97533928..97536460-chr2:97620435..97623005,3	K562	blood:
3	chr2:97516728..97547486-chr2:97588377..97628331,265	MCF-7	breast:
4	chr2:97496139..97498847-chr2:97620016..97622064,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168763	Chromatin interaction
ENSG00000163126	Chromatin interaction
ENSG00000168758	Chromatin interaction
ENSG00000213337	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11900461	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57035274	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59178801	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60019075	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60337859	0.86[ASN][1000 genomes]
rs60608738	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6576996	0.88[EUR][1000 genomes]
rs6728642	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73959416	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7580504	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7584641	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7593754	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription 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 miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
7	nsv874680	chr2:97309574-97678319	Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
8	nsv526313	chr2:97333492-97660619	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
9	nsv582497	chr2:97569305-97715154	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	esv2757819	chr2:97571109-98336507	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
11	esv2759077	chr2:97571109-98336507	Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
12	nsv1001432	chr2:97591069-97671395	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	esv32727	chr2:97616488-97643975	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:97615400-97621800	Enhancers	Colonic Mucosa	Colon
2	chr2:97617000-97621800	Enhancers	Duodenum Smooth Muscle	Duodenum
3	chr2:97617000-97622800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr2:97617400-97623400	Enhancers	Fetal Stomach	stomach
5	chr2:97619200-97622200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr2:97619400-97622000	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr2:97619400-97623000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr2:97619600-97623400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr2:97619600-97628400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr2:97620200-97622800	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr2:97620200-97622800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr2:97620200-97622800	Weak transcription	Pancreas	Pancrea
13	chr2:97620200-97622800	Weak transcription	K562	blood
14	chr2:97620200-97623000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr2:97620200-97623000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr2:97620200-97623200	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr2:97620200-97625600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr2:97620400-97622800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr2:97620400-97625000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr2:97620400-97625200	Weak transcription	Brain Angular Gyrus	brain
21	chr2:97620400-97625200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr2:97620400-97625200	Weak transcription	Brain Hippocampus Middle	brain
23	chr2:97620400-97625800	Weak transcription	Primary T cells from cord blood	blood
24	chr2:97620400-97625800	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr2:97620400-97629400	Weak transcription	Fetal Intestine Large	intestine
26	chr2:97620600-97622000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr2:97620600-97625200	Weak transcription	Brain Substantia Nigra	brain
28	chr2:97620600-97625600	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr2:97620600-97625600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr2:97620600-97625600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr2:97620600-97625600	Weak transcription	Fetal Brain Female	brain
32	chr2:97620600-97626000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr2:97620600-97626000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr2:97620600-97628200	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr2:97620800-97622000	Weak transcription	Fetal Brain Male	brain
36	chr2:97620800-97623000	Weak transcription	Fetal Lung	lung
37	chr2:97620800-97625600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr2:97620800-97625600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr2:97620800-97625600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr2:97620800-97625600	Weak transcription	Primary T helper cells fromperipheralblood	blood
41	chr2:97620800-97625600	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr2:97620800-97626000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr2:97620800-97626000	Weak transcription	Duodenum Mucosa	Duodenum
44	chr2:97620800-97626000	Weak transcription	Stomach Mucosa	stomach
45	chr2:97620800-97627600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr2:97620800-97629600	Weak transcription	Fetal Intestine Small	intestine
47	chr2:97620800-97643600	Weak transcription	Right Atrium	heart
48	chr2:97621000-97626000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr2:97621000-97626400	Weak transcription	GM12878-XiMat	blood
50	chr2:97621400-97622000	Enhancers	Primary hematopoietic stem cells short term culture	blood

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