Variant report

Variant	rs9377217
Chromosome Location	chr6:149746293-149746294
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149379361..149382289-chr6:149745014..149748004,4	MCF-7	breast:
2	chr6:149745176..149748304-chr6:149748732..149751749,4	MCF-7	breast:
3	chr6:149740980..149743677-chr6:149744800..149747765,2	K562	blood:
4	chr6:149744819..149747181-chr6:149748180..149751163,2	MCF-7	breast:
5	chr6:149352125..149354322-chr6:149744702..149746498,2	MCF-7	breast:
6	chr6:149348466..149350718-chr6:149745093..149747617,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236591	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1074495	0.86[AFR][1000 genomes]
rs17086451	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2153219	0.82[AFR][1000 genomes]
rs2341783	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2341784	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2744427	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2744428	0.82[EUR][1000 genomes]
rs2744431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2744432	0.83[ASN][1000 genomes]
rs2744433	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2744434	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2789487	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2789489	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2789490	0.83[EUR][1000 genomes]
rs2789500	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs3734296	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs4360154	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs472620	0.80[EUR][1000 genomes]
rs472810	0.80[EUR][1000 genomes]
rs474369	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs478531	0.83[EUR][1000 genomes]
rs478767	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs480526	0.88[CEU][hapmap]
rs480778	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4897117	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs490529	0.80[EUR][1000 genomes]
rs492956	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs494340	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs501926	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs504762	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs511105	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs513923	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs515133	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs518879	0.80[EUR][1000 genomes]
rs522646	0.80[EUR][1000 genomes]
rs527971	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs532008	0.80[EUR][1000 genomes]
rs532250	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs533026	0.80[EUR][1000 genomes]
rs538386	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs554926	0.82[EUR][1000 genomes]
rs556335	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs559052	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs559204	0.80[EUR][1000 genomes]
rs565825	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs570442	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs588028	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60006373	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs600739	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs630642	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs641068	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs652514	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs652921	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs663625	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs664951	0.81[AFR][1000 genomes]
rs674919	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs681919	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs760897	0.82[AFR][1000 genomes]
rs909793	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs92605	0.80[EUR][1000 genomes]
rs9377216	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9377218	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs9390676	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs9399686	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9404032	0.83[EUR][1000 genomes]
rs9404034	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs9404035	0.83[EUR][1000 genomes]
rs9404037	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv517606	chr6:149744632-149755695	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv470866	chr6:149744632-149806552	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149709600-149750200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:149744000-149746800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:149744600-149746400	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr6:149745200-149746800	Enhancers	Placenta	Placenta
5	chr6:149745400-149746800	Weak transcription	Fetal Heart	heart
6	chr6:149745400-149748600	Weak transcription	HSMMtube	muscle
7	chr6:149745400-149750400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:149745600-149746600	Enhancers	Brain Cingulate Gyrus	brain
9	chr6:149745600-149746600	Enhancers	Brain Hippocampus Middle	brain
10	chr6:149745600-149747000	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr6:149745600-149749000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr6:149745600-149750200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:149745600-149752800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr6:149745600-149752800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:149745600-149752800	Weak transcription	HSMM	muscle
16	chr6:149745600-149753000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr6:149745600-149753000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:149745600-149753000	Weak transcription	Fetal Muscle Leg	muscle
19	chr6:149746200-149746400	Enhancers	Lung	lung
20	chr6:149746200-149746800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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