Variant report

Variant	rs6571897
Chromosome Location	chr14:39587438-39587439
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:39580982..39585066-chr14:39586310..39589000,3	MCF-7	breast:
2	chr14:39586880..39588483-chr14:39644017..39645694,2	K562	blood:
3	chr14:39582595..39584912-chr14:39586260..39591171,5	MCF-7	breast:
4	chr14:39586594..39589451-chr14:39598001..39600988,3	MCF-7	breast:
5	chr14:39587019..39590328-chr14:39638099..39641680,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000100941	Chromatin interaction
ENSG00000092208	Chromatin interaction
ENSG00000182400	Chromatin interaction
ENSG00000259083	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11157046	0.85[ASN][1000 genomes]
rs11157047	0.85[ASN][1000 genomes]
rs11157048	0.85[ASN][1000 genomes]
rs175341	0.85[ASN][1000 genomes]
rs1956629	0.85[ASN][1000 genomes]
rs2038357	1.00[CHD][hapmap]
rs2082637	0.85[ASN][1000 genomes]
rs2180792	0.85[ASN][1000 genomes]
rs2252040	0.85[ASN][1000 genomes]
rs4290398	0.85[ASN][1000 genomes]
rs4616209	0.85[ASN][1000 genomes]
rs4902272	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4902402	1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs4902419	0.85[ASN][1000 genomes]
rs6571896	0.85[ASN][1000 genomes]
rs7147760	0.85[ASN][1000 genomes]
rs761804	0.85[ASN][1000 genomes]
rs761806	0.85[ASN][1000 genomes]
rs761807	0.85[ASN][1000 genomes]
rs8003485	0.85[ASN][1000 genomes]
rs8003807	0.85[ASN][1000 genomes]
rs8010111	0.85[ASN][1000 genomes]
rs8011855	1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs8014255	0.85[ASN][1000 genomes]
rs8014677	0.85[ASN][1000 genomes]
rs8022141	0.81[ASN][1000 genomes]
rs9322993	1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs9671927	0.85[ASN][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	esv3429206	chr14:39160730-39648836	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv1038622	chr14:39423562-39604035	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6571897	FARP1	trans	lymphoblastoid	seeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39583800-39588000	Weak transcription	Gastric	stomach
2	chr14:39583800-39626000	Weak transcription	Spleen	Spleen
3	chr14:39584000-39588000	Weak transcription	Lung	lung
4	chr14:39584000-39588200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr14:39584000-39590000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr14:39584000-39595000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr14:39584000-39615000	Weak transcription	Pancreas	Pancrea
8	chr14:39584000-39623600	Weak transcription	Esophagus	oesophagus
9	chr14:39584200-39588000	Weak transcription	Ovary	ovary
10	chr14:39584200-39592000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr14:39584200-39610800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr14:39584200-39636000	Weak transcription	Small Intestine	intestine
13	chr14:39584200-39638600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr14:39584400-39587600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr14:39584400-39587600	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr14:39584400-39588000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr14:39584400-39588200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr14:39584400-39588200	Weak transcription	HSMMtube	muscle
19	chr14:39584400-39591400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr14:39584400-39591800	Weak transcription	Right Ventricle	heart
21	chr14:39584400-39592000	Weak transcription	Brain Substantia Nigra	brain
22	chr14:39584400-39592000	Weak transcription	Fetal Kidney	kidney
23	chr14:39584400-39593400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr14:39584400-39617200	Weak transcription	Psoas Muscle	Psoas
25	chr14:39584400-39620800	Weak transcription	Colonic Mucosa	Colon
26	chr14:39584400-39626600	Weak transcription	Aorta	Aorta
27	chr14:39584600-39587600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr14:39584600-39587600	Weak transcription	Brain Angular Gyrus	brain
29	chr14:39584600-39587600	Weak transcription	Brain Cingulate Gyrus	brain
30	chr14:39584600-39587600	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr14:39584600-39587600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr14:39584600-39587600	Weak transcription	A549	lung
33	chr14:39584600-39587600	Weak transcription	HMEC	breast
34	chr14:39584600-39587800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr14:39584600-39587800	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr14:39584600-39587800	Weak transcription	Brain Hippocampus Middle	brain
37	chr14:39584600-39587800	Weak transcription	Fetal Heart	heart
38	chr14:39584600-39587800	Weak transcription	Fetal Stomach	stomach
39	chr14:39584600-39587800	Weak transcription	Hela-S3	cervix
40	chr14:39584600-39588000	Weak transcription	Primary T cells from cord blood	blood
41	chr14:39584600-39588000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr14:39584600-39588000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr14:39584600-39588000	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr14:39584600-39588000	Weak transcription	Fetal Muscle Trunk	muscle
45	chr14:39584600-39588000	Weak transcription	Fetal Muscle Leg	muscle
46	chr14:39584600-39588200	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr14:39584600-39588200	Weak transcription	Primary B cells from cord blood	blood
48	chr14:39584600-39588200	Weak transcription	Duodenum Mucosa	Duodenum
49	chr14:39584600-39588200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr14:39584600-39588200	Weak transcription	Fetal Brain Male	brain

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