Variant report

Variant	rs4713852
Chromosome Location	chr6:11753924-11753925
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11743683..11746205-chr6:11753336..11755527,2	K562	blood:
2	chr6:11751708..11754177-chr6:11766373..11768735,2	K562	blood:
3	chr6:11748843..11751736-chr6:11752241..11754042,2	K562	blood:

Variant related genes	Relation type
ENSG00000111863	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12189748	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12198491	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12211506	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs210890	0.85[CEU][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs210925	0.85[CHB][hapmap]
rs210926	0.85[CEU][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs210931	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs210933	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs2235396	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2235397	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2235411	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2743953	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs2781127	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs6457810	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs6457825	0.85[CHB][hapmap]
rs6908760	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6911562	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6938865	0.80[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.82[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9368866	0.85[CHB][hapmap];0.89[MEX][hapmap]
rs9380503	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9394295	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462058	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9469947	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9469963	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[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	esv2758036	chr6:11679753-11822351	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759407	chr6:11679753-11822351	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4713852	SLC35B3	cis	parietal	SCAN
rs4713852	C6orf105	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11719400-11762200	Weak transcription	Colonic Mucosa	Colon
2	chr6:11735600-11754800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:11736200-11754800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:11738600-11762000	Weak transcription	Gastric	stomach
5	chr6:11739000-11755000	Weak transcription	HMEC	breast
6	chr6:11742000-11755000	Weak transcription	HSMM	muscle
7	chr6:11744800-11754400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:11745800-11754200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr6:11749600-11755000	Enhancers	Fetal Intestine Small	intestine
10	chr6:11749800-11754000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:11750800-11755000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr6:11752400-11757800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:11752800-11754800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:11753000-11754000	Weak transcription	HUVEC	blood vessel
15	chr6:11753000-11757800	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:11753000-11759200	Weak transcription	Stomach Mucosa	stomach
17	chr6:11753000-11760000	Weak transcription	Small Intestine	intestine
18	chr6:11753200-11754400	Weak transcription	NHDF-Ad	bronchial
19	chr6:11753200-11754800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:11753200-11759200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr6:11753200-11763800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr6:11753600-11754000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:11753600-11758000	Weak transcription	Duodenum Mucosa	Duodenum
24	chr6:11753800-11754000	Enhancers	NHEK	skin
25	chr6:11753800-11755200	Enhancers	Fetal Intestine Large	intestine

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