Variant report

Variant	rs154198
Chromosome Location	chr5:97973326-97973327
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:97960709..97962831-chr5:97972137..97973848,2	K562	blood:
2	chr1:114624344..114625029-chr5:97973309..97973944,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs149508	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs160717	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs160721	1.00[ASN][1000 genomes]
rs160722	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs192172	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs27020	1.00[ASN][1000 genomes]
rs27578	0.89[EUR][1000 genomes]
rs27706	1.00[ASN][1000 genomes]
rs294029	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs316507	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs379915	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs391352	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs40173	1.00[ASN][1000 genomes]
rs40807	1.00[ASN][1000 genomes]
rs439228	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs456509	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs457294	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs457827	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs460980	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs463403	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs466068	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs466154	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs469731	1.00[ASN][1000 genomes]
rs469946	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016611	chr5:97873846-98035559	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv537816	chr5:97873846-98035559	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv1029509	chr5:97888644-98040172	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv882413	chr5:97918829-98022320	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv1832089	chr5:97934125-97976039	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs154198	SLCO4C1	cis	parietal	SCAN
rs154198	RGMB	cis	lymphoblastoid	seeQTL

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97967400-97975000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr5:97971600-97974000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr5:97971800-97973400	Weak transcription	Adipose Nuclei	Adipose
4	chr5:97971800-97973600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr5:97971800-97973600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr5:97971800-97974000	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr5:97971800-97974000	Weak transcription	HSMM	muscle
8	chr5:97971800-97974200	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:97971800-97974200	Weak transcription	NHLF	lung
10	chr5:97971800-97975000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:97972000-97973400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr5:97972000-97973400	Weak transcription	Osteobl	bone
13	chr5:97972000-97973600	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr5:97972000-97973800	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr5:97972000-97974000	Weak transcription	Small Intestine	intestine
16	chr5:97972000-97975000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr5:97972000-97977600	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr5:97972000-97977600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr5:97972800-97974600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr5:97973000-97973600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr5:97973000-97974000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr5:97973000-97974600	Enhancers	HSMMtube	muscle
23	chr5:97973000-97975400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:97973000-97975400	Enhancers	NHDF-Ad	bronchial
25	chr5:97973200-97975200	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr5:97973200-97975200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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