Variant report

Variant	rs17398091
Chromosome Location	chr1:86072996-86072997
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:86045532..86047930-chr1:86071624..86075132,3	MCF-7	breast:
2	chr1:86050411..86052188-chr1:86071339..86074227,2	MCF-7	breast:
3	chr1:86044508..86046493-chr1:86071384..86074227,2	K562	blood:
4	chr1:86044046..86050058-chr1:86065602..86074449,16	MCF-7	breast:

Variant related genes	Relation type
ENSG00000142871	Chromatin interaction
ENSG00000272691	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs417887	1.00[CHB][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs61783080	0.85[AMR][1000 genomes]
rs61783734	0.80[AMR][1000 genomes]
rs61787165	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	esv3391173	chr1:86005637-86337469	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17398091	ZNHIT6	cis	Adipose Subcutaneous	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:86048800-86081200	Weak transcription	Gastric	stomach
2	chr1:86066600-86077000	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr1:86068000-86074600	Enhancers	Fetal Intestine Small	intestine
4	chr1:86068400-86074800	Enhancers	Fetal Intestine Large	intestine
5	chr1:86070000-86076800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr1:86070600-86076600	Weak transcription	Fetal Stomach	stomach
7	chr1:86071200-86076600	Weak transcription	Fetal Lung	lung
8	chr1:86071200-86076800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:86071400-86073200	Enhancers	Pancreas	Pancrea
10	chr1:86071400-86074200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr1:86071400-86074200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr1:86071400-86075000	Enhancers	HSMM	muscle
13	chr1:86071400-86075400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr1:86071600-86073400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr1:86071600-86074400	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr1:86071600-86074600	Enhancers	HUVEC	blood vessel
17	chr1:86071600-86076600	Enhancers	NHDF-Ad	bronchial
18	chr1:86071600-86078800	Enhancers	NHLF	lung
19	chr1:86071800-86073400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr1:86071800-86073400	Enhancers	Osteobl	bone
21	chr1:86071800-86074200	Enhancers	NHEK	skin
22	chr1:86071800-86074400	Enhancers	HMEC	breast
23	chr1:86071800-86074400	Enhancers	NH-A	brain
24	chr1:86071800-86074600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr1:86071800-86074600	Enhancers	HSMMtube	muscle
26	chr1:86071800-86076800	Enhancers	Muscle Satellite Cultured Cells	--
27	chr1:86072000-86073200	Enhancers	A549	lung
28	chr1:86072000-86073800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
29	chr1:86072000-86074000	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr1:86072000-86074200	Enhancers	H1 Cell Line	embryonic stem cell
31	chr1:86072000-86074200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr1:86072000-86074200	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr1:86072000-86074200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr1:86072000-86074400	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr1:86072000-86074400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr1:86072000-86074600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr1:86072200-86073000	Enhancers	Hela-S3	cervix
38	chr1:86072200-86073200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr1:86072200-86073600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr1:86072200-86074200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr1:86072200-86074200	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr1:86072200-86077600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr1:86072400-86074200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr1:86072400-86074600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr1:86072400-86076600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr1:86072400-86076600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr1:86072600-86073000	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
48	chr1:86072600-86073000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr1:86072600-86073000	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
50	chr1:86072600-86073000	Enhancers	Breast Myoepithelial Primary Cells	Breast

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