Variant report

Variant	rs16909145
Chromosome Location	chr9:96216187-96216188
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	HCFC1	chr9:96215134-96216730	Hela-S3	cervix:	n/a	n/a
2	POLR2A	chr9:96215058-96216293	GM12892	blood:	n/a	n/a
3	MAX	chr9:96212517-96216356	A549	lung:	n/a	chr9:96212814-96212824
4	MAZ	chr9:96215435-96216255	GM12878	blood:	n/a	n/a
5	IRF3	chr9:96215785-96216203	Hela-S3	cervix:	n/a	n/a
6	POLR2A	chr9:96213063-96216221	Raji	blood:	n/a	n/a
7	STAT5A	chr9:96214929-96216256	GM12878	blood:	n/a	n/a
8	ELF1	chr9:96215728-96216243	GM12878	blood:	n/a	n/a
9	YY1	chr9:96215476-96216245	GM12892	blood:	n/a	n/a
10	TFAP2C	chr9:96215568-96216337	Hela-S3	cervix:	n/a	n/a
11	EGR1	chr9:96215181-96216388	HCT-116	colon:	n/a	chr9:96216009-96216018 chr9:96215822-96215832 chr9:96215926-96215939 chr9:96215610-96215634
12	TBP	chr9:96212733-96216257	K562	blood:	n/a	n/a
13	BRCA1	chr9:96215680-96216425	Hela-S3	cervix:	n/a	n/a
14	JUND	chr9:96215491-96216204	K562	blood:	n/a	n/a
15	ZNF143	chr9:96215370-96216261	K562	blood:	n/a	n/a
16	POLR2A	chr9:96215621-96216198	H1-neurons	neurons:	n/a	n/a
17	GABPA	chr9:96215349-96216291	SK-N-SH	brain:	n/a	n/a
18	MXI1	chr9:96215258-96216203	HepG2	liver:	n/a	n/a
19	MAX	chr9:96215617-96216204	NB4	blood:	n/a	n/a
20	ZNF143	chr9:96215256-96216201	GM12878	blood:	n/a	n/a
21	YY1	chr9:96215441-96216209	ECC-1	luminal epithelium:	n/a	n/a
22	POLR2A	chr9:96214157-96216347	GM12878	blood:	n/a	n/a
23	POLR2A	chr9:96215014-96216268	PFSK-1	brain:	n/a	n/a
24	NFYA	chr9:96215766-96216256	GM12878	blood:	n/a	chr9:96215947-96215962 chr9:96215947-96215962 chr9:96215943-96215961
25	YY1	chr9:96215583-96216242	SK-N-SH_RA	brain:	n/a	n/a
26	MAX	chr9:96215496-96216207	SK-N-SH	brain:	n/a	n/a
27	CCNT2	chr9:96215495-96216197	K562	blood:	n/a	n/a
28	RELA	chr9:96215144-96216246	GM15510	blood:	n/a	n/a
29	RUNX3	chr9:96215467-96216299	GM12878	blood:	n/a	n/a
30	POLR2A	chr9:96214153-96216292	SK-N-MC	brain:	n/a	n/a
31	JUN	chr9:96215371-96216375	K562	blood:	n/a	n/a
32	FOS	chr9:96215825-96216201	MCF10A-Er-Src	breast:	n/a	n/a
33	POLR2A	chr9:96215004-96216313	MCF-7	breast:	n/a	n/a
34	CREB1	chr9:96215819-96216272	H1-hESC	embryonic stem cell:	n/a	n/a
35	ELF1	chr9:96215598-96216267	MCF-7	breast:	n/a	n/a
36	POLR2A	chr9:96215088-96216202	K562	blood:	n/a	n/a
37	TFAP2A	chr9:96215633-96216303	Hela-S3	cervix:	n/a	chr9:96216043-96216053 chr9:96216043-96216053 chr9:96216043-96216053 chr9:96216041-96216055 chr9:96216043-96216053
38	MYC	chr9:96215344-96216248	K562	blood:	n/a	n/a
39	SP2	chr9:96215649-96216211	HepG2	liver:	n/a	chr9:96215686-96215696 chr9:96215878-96215893
40	POLR2A	chr9:96215630-96216237	MCF10A-Er-Src	breast:	n/a	n/a
41	POLR2A	chr9:96214984-96216214	IMR90	lung:	n/a	n/a
42	SPI1	chr9:96215679-96216316	HL-60	blood:	n/a	chr9:96216006-96216019 chr9:96216009-96216016 chr9:96215868-96215881
43	POLR2A	chr9:96214286-96217706	GM12891	blood:	n/a	n/a
44	POLR2A	chr9:96215634-96216194	H1-hESC	embryonic stem cell:	n/a	n/a
45	POLR2A	chr9:96213094-96216264	GM18951	blood:	n/a	n/a
46	STAT3	chr9:96215575-96216355	GM12878	blood:	n/a	n/a
47	ELF1	chr9:96215542-96216421	MCF-7	breast:	n/a	n/a
48	NFYB	chr9:96215514-96216247	K562	blood:	n/a	chr9:96215947-96215962 chr9:96215947-96215962 chr9:96215670-96215683 chr9:96215949-96215964
49	PML	chr9:96215117-96216235	K562	blood:	n/a	n/a
50	POLR2A	chr9:96213111-96216260	GM18526	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:96216144..96218781-chr9:96233420..96235999,2	K562	blood:
2	chr6:56817242..56820030-chr9:96215701..96218251,2	MCF-7	breast:
3	chr9:96212024..96217170-chr9:96326121..96330116,7	MCF-7	breast:
4	chr9:96213805..96216467-chr9:96293601..96296819,4	MCF-7	breast:
5	chr9:95895534..95897628-chr9:96214404..96216660,2	MCF-7	breast:
6	chr9:96210381..96218248-chr9:96327402..96333234,10	MCF-7	breast:
7	chr9:95857571..95862229-chr9:96211597..96216359,5	K562	blood:
8	chr9:96072987..96083429-chr9:96209751..96218385,15	MCF-7	breast:
9	chr9:96214499..96217099-chr9:96338317..96340265,2	K562	blood:
10	chr9:95870093..95872225-chr9:96214291..96216786,2	K562	blood:
11	chr9:95858239..95860012-chr9:96214576..96216562,2	MCF-7	breast:
12	chr9:95893830..95897202-chr9:96212872..96217148,4	MCF-7	breast:
13	chr9:96211672..96218862-chr9:96335264..96341672,16	MCF-7	breast:

Variant related genes	Relation type
FAM120AOS	TF binding region
ENSG00000165238	Chromatin interaction
ENSG00000223446	Chromatin interaction
ENSG00000263875	Chromatin interaction
ENSG00000165233	Chromatin interaction
ENSG00000151917	Chromatin interaction
ENSG00000197724	Chromatin interaction
ENSG00000131669	Chromatin interaction
ENSG00000048828	Chromatin interaction
ENSG00000151914	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10115890	0.94[EUR][1000 genomes]
rs10119044	0.94[EUR][1000 genomes]
rs10119048	0.94[EUR][1000 genomes]
rs10119086	1.00[JPT][hapmap]
rs10120391	0.94[EUR][1000 genomes]
rs10121801	0.94[EUR][1000 genomes]
rs10992730	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs12345304	0.94[EUR][1000 genomes]
rs12345623	0.94[EUR][1000 genomes]
rs16909167	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16909202	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16909214	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16909243	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16909308	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16912641	1.00[CEU][hapmap]
rs2001587	1.00[AMR][1000 genomes]
rs2001588	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs2398854	1.00[AMR][1000 genomes]
rs35505758	1.00[AMR][1000 genomes]
rs4112205	1.00[CEU][hapmap]
rs41274380	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41274382	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41274392	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41274394	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41274432	1.00[AMR][1000 genomes]
rs60016166	1.00[AMR][1000 genomes]
rs6479486	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7020585	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7027881	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7030805	1.00[AMR][1000 genomes]
rs7031483	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035026	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7043966	0.90[ASN][1000 genomes]
rs73522240	1.00[AMR][1000 genomes]
rs73522243	1.00[AMR][1000 genomes]
rs73522271	1.00[AMR][1000 genomes]
rs73522273	1.00[AMR][1000 genomes]
rs73522292	1.00[AMR][1000 genomes]
rs73522296	1.00[AMR][1000 genomes]
rs73523904	1.00[AMR][1000 genomes]
rs73523906	1.00[AMR][1000 genomes]
rs73523907	1.00[AMR][1000 genomes]
rs73523908	1.00[AMR][1000 genomes]
rs73651207	0.94[EUR][1000 genomes]
rs73651208	0.94[EUR][1000 genomes]
rs7849843	0.94[EUR][1000 genomes]
rs7864950	0.94[EUR][1000 genomes]
rs7867699	0.94[EUR][1000 genomes]
rs7868092	0.94[EUR][1000 genomes]
rs7870558	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7873803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7875378	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96212200-96216200	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr9:96212400-96216200	Active TSS	Fetal Kidney	kidney
3	chr9:96212400-96216400	Active TSS	HUES48 Cell Line	embryonic stem cell
4	chr9:96212400-96216400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:96212400-96216400	Active TSS	A549	lung
6	chr9:96212400-96216400	Active TSS	HSMM	muscle
7	chr9:96212400-96216600	Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr9:96212400-96216800	Active TSS	HUES64 Cell Line	embryonic stem cell
9	chr9:96212400-96216800	Active TSS	iPS-20b Cell Line	embryonic stem cell
10	chr9:96212400-96217000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr9:96212400-96217000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr9:96212600-96216400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:96212600-96216400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr9:96212600-96216400	Active TSS	Aorta	Aorta
15	chr9:96212600-96216400	Active TSS	Ovary	ovary
16	chr9:96212600-96216400	Active TSS	NHDF-Ad	bronchial
17	chr9:96212600-96216600	Active TSS	H9 Cell Line	embryonic stem cell
18	chr9:96212600-96216600	Active TSS	Sigmoid Colon	Sigmoid Colon
19	chr9:96212600-96217000	Active TSS	iPS-15b Cell Line	embryonic stem cell
20	chr9:96212600-96217200	Active TSS	H1 Cell Line	embryonic stem cell
21	chr9:96212600-96218400	Active TSS	GM12878-XiMat	blood
22	chr9:96212800-96216200	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr9:96212800-96216200	Active TSS	Muscle Satellite Cultured Cells	--
24	chr9:96212800-96216200	Active TSS	Fetal Lung	lung
25	chr9:96212800-96216200	Active TSS	Gastric	stomach
26	chr9:96212800-96216200	Active TSS	Pancreas	Pancrea
27	chr9:96212800-96216200	Active TSS	Rectal Smooth Muscle	rectum
28	chr9:96212800-96216200	Active TSS	Hela-S3	cervix
29	chr9:96212800-96216400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr9:96212800-96216400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr9:96212800-96216400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr9:96212800-96216400	Active TSS	Esophagus	oesophagus
33	chr9:96212800-96216400	Active TSS	Fetal Intestine Small	intestine
34	chr9:96212800-96216400	Active TSS	Fetal Stomach	stomach
35	chr9:96212800-96216400	Active TSS	Small Intestine	intestine
36	chr9:96212800-96216600	Active TSS	ES-I3 Cell Line	embryonic stem cell
37	chr9:96212800-96216600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr9:96212800-96216600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr9:96212800-96216600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr9:96212800-96216600	Active TSS	Psoas Muscle	Psoas
41	chr9:96212800-96216600	Active TSS	K562	blood
42	chr9:96212800-96216800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
43	chr9:96213000-96216200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr9:96213000-96216200	Active TSS	iPS-18 Cell Line	embryonic stem cell
45	chr9:96213000-96216200	Active TSS	Primary T killer memory cells from peripheral blood	blood
46	chr9:96213000-96216200	Active TSS	Brain Cingulate Gyrus	brain
47	chr9:96213000-96216200	Active TSS	Brain Hippocampus Middle	brain
48	chr9:96213000-96216200	Active TSS	Colon Smooth Muscle	Colon
49	chr9:96213000-96216200	Active TSS	Fetal Brain Male	brain
50	chr9:96213000-96216200	Active TSS	Fetal Heart	heart

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