Variant report

Variant	rs9257187
Chromosome Location	chr6:28756902-28756903
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28743433..28746834-chr6:28752955..28757172,5	K562	blood:
2	chr6:28705580..28707892-chr6:28755666..28757274,2	K562	blood:
3	chr6:28677491..28679930-chr6:28756497..28758578,2	K562	blood:
4	chr6:28739775..28742884-chr6:28756307..28759477,3	K562	blood:
5	chr6:28752766..28756379-chr6:28756550..28759154,4	K562	blood:
6	chr6:28755863..28758470-chr6:28911484..28913225,2	K562	blood:
7	chr6:28756425..28760621-chr6:28761088..28764506,5	K562	blood:
8	chr6:28746864..28751693-chr6:28754692..28757727,4	K562	blood:
9	chr6:28665488..28667691-chr6:28756212..28758692,2	K562	blood:
10	chr6:28756573..28759569-chr6:28769791..28772080,4	K562	blood:
11	chr6:28695047..28697144-chr6:28756622..28759292,2	K562	blood:
12	chr6:28755863..28759570-chr6:28911484..28914475,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000204709	Chromatin interaction
ENSG00000221191	Chromatin interaction
ENSG00000265764	Chromatin interaction

Extended variants
information (count: 119 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs1233579	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1233580	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1233581	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1233583	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1233593	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1233594	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1233599	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1233600	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1233604	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1233618	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1233620	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1233623	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1238262	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1311911	0.94[EUR][1000 genomes]
rs1311912	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1311913	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13194504	0.84[EUR][1000 genomes]
rs13206458	0.80[EUR][1000 genomes]
rs13217472	0.89[EUR][1000 genomes]
rs1742743	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3118357	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3118359	0.84[EUR][1000 genomes]
rs3118360	0.84[EUR][1000 genomes]
rs3118361	0.80[EUR][1000 genomes]
rs3118365	0.86[AFR][1000 genomes]
rs3118366	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3118367	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3130838	0.84[EUR][1000 genomes]
rs3130844	0.80[EUR][1000 genomes]
rs3130845	0.80[EUR][1000 genomes]
rs3130847	0.80[EUR][1000 genomes]
rs3130892	0.80[EUR][1000 genomes]
rs3131068	0.80[EUR][1000 genomes]
rs3131069	0.80[EUR][1000 genomes]
rs3131071	0.80[EUR][1000 genomes]
rs3131072	0.80[EUR][1000 genomes]
rs3131075	0.80[EUR][1000 genomes]
rs3131076	0.80[EUR][1000 genomes]
rs3131093	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3131094	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3131095	0.84[EUR][1000 genomes]
rs3131096	0.84[EUR][1000 genomes]
rs3131097	0.84[EUR][1000 genomes]
rs3131335	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3131336	0.84[EUR][1000 genomes]
rs3131340	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs3131341	0.87[EUR][1000 genomes]
rs3131343	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs3131345	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3132373	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs3132374	0.80[EUR][1000 genomes]
rs3132376	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3132382	0.80[EUR][1000 genomes]
rs3132384	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3132385	0.84[EUR][1000 genomes]
rs3132387	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3132388	0.84[EUR][1000 genomes]
rs3132389	0.84[EUR][1000 genomes]
rs3132391	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3132392	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3132393	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3132394	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3132395	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3132396	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs3135293	0.84[EUR][1000 genomes]
rs3135294	0.85[EUR][1000 genomes]
rs3135295	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3135297	0.84[AFR][1000 genomes]
rs3135298	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3135300	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3135302	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3135304	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3135306	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3135307	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3135308	0.84[EUR][1000 genomes]
rs3135309	0.84[EUR][1000 genomes]
rs3135310	0.84[EUR][1000 genomes]
rs3135311	0.84[EUR][1000 genomes]
rs3135312	0.84[EUR][1000 genomes]
rs3135313	0.84[EUR][1000 genomes]
rs3135316	0.84[EUR][1000 genomes]
rs3135318	0.80[EUR][1000 genomes]
rs3135325	0.80[EUR][1000 genomes]
rs34724414	0.84[EUR][1000 genomes]
rs35044849	0.84[EUR][1000 genomes]
rs35243068	0.89[EUR][1000 genomes]
rs4324798	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs6456835	0.91[EUR][1000 genomes]
rs6908726	0.87[EUR][1000 genomes]
rs6928657	0.83[AFR][1000 genomes]
rs7745088	0.86[AFR][1000 genomes]
rs7760313	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7761321	0.93[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs7764642	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7766699	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7767099	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9257133	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9257136	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9257137	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9257140	0.96[EUR][1000 genomes]
rs9257167	1.00[EUR][1000 genomes]
rs9257183	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9257184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9257188	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9257189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9257192	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9257217	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9257223	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9257227	0.84[EUR][1000 genomes]
rs9257245	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9257250	0.88[AFR][1000 genomes]
rs9257262	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9257267	0.86[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs9257272	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9257331	0.84[EUR][1000 genomes]
rs9393926	0.87[EUR][1000 genomes]
rs9393929	0.84[EUR][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	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv883517	chr6:28751727-28802149	Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9257187	ZFP57	Cis_1M	lymphoblastoid	RTeQTL
rs9257187	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL
rs9257187	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28755800-28757600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr6:28756400-28757200	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:28756400-28757200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
4	chr6:28756400-28758600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
5	chr6:28756400-28759200	Active TSS	A549	lung
6	chr6:28756600-28757000	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:28756600-28757000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:28756600-28757000	Bivalent Enhancer	Brain Germinal Matrix	brain
9	chr6:28756600-28757000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
10	chr6:28756600-28757400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
11	chr6:28756600-28757600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
12	chr6:28756600-28757600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
13	chr6:28756600-28757600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
14	chr6:28756600-28757800	Bivalent/Poised TSS	Primary T cells from cord blood	blood
15	chr6:28756600-28757800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
16	chr6:28756600-28758600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:28756600-28759000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
18	chr6:28756800-28757400	Bivalent/Poised TSS	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:28756800-28757600	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:28756800-28758800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr6:28756800-28759000	Active TSS	Placenta	Placenta
22	chr6:28756800-28759000	Active TSS	K562	blood
23	chr6:28756800-28759200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell

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