Variant report

Variant	rs10003216
Chromosome Location	chr4:9766749-9766750
allele	A/G
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:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:9765483..9767943-chr4:10007316..10009788,2	MCF-7	breast:
2	chr2:91815162..91820044-chr4:9763391..9768700,25	MCF-7	breast:
3	chr1:149221736..149225365-chr4:9763717..9766826,4	MCF-7	breast:
4	chr4:9766550..9767471-chr4:10020110..10020837,2	MCF-7	breast:
5	chr2:91815178..91817122-chr4:9765055..9766792,2	K562	blood:
6	chr2:91815622..91818416-chr4:9765055..9766802,2	K562	blood:
7	chr4:9766486..9767204-chr4:10064960..10065893,2	MCF-7	breast:
8	chr2:91817635..91819182-chr4:9766044..9767255,9	MCF-7	breast:
9	chr2:91818675..91820415-chr4:9765033..9768552,3	K562	blood:
10	chr2:91816088..91820118-chr4:9765029..9767622,10	MCF-7	breast:
11	chr2:91818108..91819097-chr4:9766527..9767180,2	K562	blood:
12	chr4:9766226..9767390-chr4:9899951..9901032,8	MCF-7	breast:
13	chr2:91816400..91817015-chr4:9766701..9767270,2	MCF-7	breast:
14	chr4:9766485..9767197-chr4:10016698..10017481,2	MCF-7	breast:
15	chr2:91818363..91818948-chr4:9766445..9767270,6	MCF-7	breast:
16	chr1:149220703..149225113-chr4:9764948..9767069,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000206737	Chromatin interaction
ENSG00000250413	Chromatin interaction
ENSG00000109667	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10004319	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10012516	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs10013858	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10015665	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10022923	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10033951	0.81[CEU][hapmap]
rs10939509	0.80[EUR][1000 genomes]
rs11726288	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11731100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12507861	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12509511	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13106539	1.00[CEU][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13112576	0.88[EUR][1000 genomes]
rs13117391	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13118112	0.81[EUR][1000 genomes]
rs13124141	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13124305	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13129487	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13129974	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs13141123	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13143667	0.89[EUR][1000 genomes]
rs13145337	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13145733	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13148356	0.81[EUR][1000 genomes]
rs2280206	1.00[CEU][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2280207	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2280333	0.81[EUR][1000 genomes]
rs56139970	0.81[EUR][1000 genomes]
rs6815039	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6835741	0.88[EUR][1000 genomes]
rs6841397	0.81[EUR][1000 genomes]
rs7655090	0.81[CEU][hapmap]
rs7685396	0.96[CEU][hapmap];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533218	chr4:9371016-10252290	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	74 gene(s)	inside rSNPs	diseases
2	esv2754610	chr4:9372303-9804524	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
3	nsv530090	chr4:9383695-10165033	Enhancers Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	70 gene(s)	inside rSNPs	diseases
4	nsv1012865	chr4:9429299-9794181	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
5	nsv1001143	chr4:9435322-9794181	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
6	nsv1012621	chr4:9456977-9802366	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
7	nsv1012634	chr4:9461218-9802366	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
8	nsv998043	chr4:9496282-9830208	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
9	nsv878667	chr4:9543673-9903121	ZNF genes & repeats Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
10	nsv878669	chr4:9551094-9794724	Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
11	nsv999102	chr4:9633247-9794181	Enhancers Bivalent Enhancer Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
12	nsv1014216	chr4:9713612-10223836	Transcr. at gene 5' and 3' Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	53 gene(s)	inside rSNPs	diseases
13	nsv1010249	chr4:9716101-10086188	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:9763600-9767600	Weak transcription	Right Atrium	heart
2	chr4:9766200-9766800	Enhancers	Primary neutrophils fromperipheralblood	blood
3	chr4:9766400-9766800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr4:9766400-9766800	Bivalent Enhancer	Fetal Muscle Leg	muscle
5	chr4:9766600-9766800	Flanking Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr4:9766600-9767200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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