Variant report

Variant	rs7889977
Chromosome Location	chrX:55026548-55026549
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	GABPA	chrX:55026242-55026843	K562	blood:	n/a	chrX:55026747-55026758 chrX:55026749-55026758 chrX:55026636-55026643
2	RCOR1	chrX:55026188-55026839	HepG2	liver:	n/a	n/a
3	POLR2A	chrX:55026012-55027014	GM12891	blood:	n/a	n/a
4	POLR2A	chrX:55025982-55027199	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chrX:55026122-55026984	H1-hESC	embryonic stem cell:	n/a	n/a
6	CCNT2	chrX:55026063-55027037	K562	blood:	n/a	n/a
7	TEAD4	chrX:55026138-55027067	K562	blood:	n/a	n/a
8	TAF1	chrX:55026421-55026954	GM12891	blood:	n/a	n/a
9	ELF1	chrX:55026274-55027015	SK-N-SH	brain:	n/a	chrX:55026544-55026555
10	NFYB	chrX:55026107-55026863	GM12878	blood:	n/a	chrX:55026674-55026688 chrX:55026674-55026689 chrX:55026671-55026686 chrX:55026674-55026689 chrX:55026676-55026686
11	SIN3AK20	chrX:55026270-55026970	PANC-1	pancreas:	n/a	n/a
12	GABPA	chrX:55026263-55027003	Hela-S3	cervix:	n/a	chrX:55026747-55026758 chrX:55026749-55026758 chrX:55026636-55026643
13	POLR2A	chrX:55026162-55027019	HepG2	liver:	n/a	n/a
14	TFAP2C	chrX:55026183-55027041	Hela-S3	cervix:	n/a	n/a
15	NFYB	chrX:55026074-55027002	K562	blood:	n/a	chrX:55026674-55026688 chrX:55026674-55026689 chrX:55026671-55026686 chrX:55026674-55026689 chrX:55026676-55026686
16	CREB1	chrX:55026096-55026948	H1-hESC	embryonic stem cell:	n/a	n/a
17	ELF1	chrX:55026249-55027094	SK-N-SH	brain:	n/a	chrX:55026544-55026555
18	POLR2A	chrX:55025982-55027050	MCF10A-Er-Src	breast:	n/a	n/a
19	KAP1	chrX:55026082-55027058	HEK293	kidney:	n/a	n/a
20	POLR2A	chrX:55025993-55026966	HUVEC	blood vessel:	n/a	n/a
21	CREB1	chrX:55026452-55027003	HepG2	liver:	n/a	n/a
22	REST	chrX:55026295-55027085	A549	lung:	n/a	n/a
23	POLR2A	chrX:55025965-55027076	HL-60	blood:	n/a	n/a
24	POLR2A	chrX:55025978-55027257	Raji	blood:	n/a	n/a
25	POLR2A	chrX:55026006-55027141	HL-60	blood:	n/a	n/a
26	POLR2A	chrX:55025651-55027461	GM12878	blood:	n/a	n/a
27	GABPA	chrX:55026006-55027236	MCF-7	breast:	n/a	chrX:55026747-55026758 chrX:55026749-55026758 chrX:55026636-55026643
28	POU2F2	chrX:55026196-55027066	GM12878	blood:	n/a	n/a
29	HEY1	chrX:55026087-55027005	HepG2	liver:	n/a	chrX:55026763-55026778
30	MYC	chrX:55026530-55027222	A549	lung:	n/a	n/a
31	RCOR1	chrX:55025994-55027026	K562	blood:	n/a	n/a
32	POLR2A	chrX:55025923-55027411	K562	blood:	n/a	n/a
33	POLR2A	chrX:55026341-55026941	K562	blood:	n/a	n/a
34	TAF1	chrX:55026096-55027003	GM12878	blood:	n/a	n/a
35	POLR2A	chrX:55026063-55027050	HepG2	liver:	n/a	n/a
36	POLR2A	chrX:55025993-55027087	GM12892	blood:	n/a	n/a
37	MAZ	chrX:55026118-55027024	Hela-S3	cervix:	n/a	chrX:55026440-55026450
38	YY1	chrX:55026495-55026877	SK-N-SH_RA	brain:	n/a	n/a
39	ATF1	chrX:55026112-55026918	K562	blood:	n/a	n/a
40	POLR2A	chrX:55026038-55026985	GM12891	blood:	n/a	n/a
41	MXI1	chrX:55026282-55027035	GM12878	blood:	n/a	n/a
42	YY1	chrX:55026178-55027006	GM12878	blood:	n/a	n/a
43	ZNF143	chrX:55026149-55027014	GM12878	blood:	n/a	n/a
44	ELF1	chrX:55026054-55027116	HCT-116	colon:	n/a	chrX:55026544-55026555
45	MAX	chrX:55026200-55027075	A549	lung:	n/a	chrX:55026440-55026450
46	POLR2A	chrX:55026119-55027085	K562	blood:	n/a	n/a
47	YY1	chrX:55026189-55026897	K562	blood:	n/a	n/a
48	ELK1	chrX:55026387-55026742	K562	blood:	n/a	n/a
49	NRF1	chrX:55026156-55026931	H1-hESC	embryonic stem cell:	n/a	chrX:55026747-55026758 chrX:55026747-55026758 chrX:55026749-55026758 chrX:55026636-55026643
50	POLR2A	chrX:55026063-55027071	GM15510	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr7:139026102..139026669-chrX:55025898..55026843,2	Hela-S3	cervix:
2	chrX:41193311..41193926-chrX:55026138..55026666,2	Hela-S3	cervix:
3	chr1:17231240..17231882-chrX:55026192..55027153,2	Hela-S3	cervix:
4	chr2:27435179..27436127-chrX:55026522..55027295,2	Hela-S3	cervix:
5	chrX:54664864..54666957-chrX:55025079..55026789,2	MCF-7	breast:
6	chr3:170587445..170588181-chrX:55026344..55026860,2	Hela-S3	cervix:
7	chr9:130213208..130214033-chrX:55026539..55027053,2	Hela-S3	cervix:
8	chrX:55018769..55021958-chrX:55025894..55027610,3	MCF-7	breast:
9	chr15:81293118..81293763-chrX:55026525..55027242,2	Hela-S3	cervix:
10	chr11:62608378..62609485-chrX:55026162..55027058,3	Hela-S3	cervix:

Variant related genes	Relation type
APEX2	TF binding region
PFKFB1	TF binding region
ENSG00000158571	Chromatin interaction
ENSG00000138074	Chromatin interaction
ENSG00000197958	Chromatin interaction
ENSG00000269955	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000163584	Chromatin interaction
ENSG00000138085	Chromatin interaction
ENSG00000140406	Chromatin interaction
ENSG00000148356	Chromatin interaction
ENSG00000215301	Chromatin interaction
ENSG00000272426	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12009826	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12009992	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12011419	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12013180	0.87[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs6521221	1.00[YRI][hapmap]
rs6612250	0.85[ASW][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap]
rs6612254	1.00[TSI][hapmap]
rs7054008	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7055550	1.00[TSI][hapmap]
rs742049	0.87[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs7876830	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7877193	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7881427	1.00[TSI][hapmap]
rs7884892	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7891167	0.87[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:55020200-55027600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chrX:55025600-55026600	Bivalent/Poised TSS	Breast Myoepithelial Primary Cells	Breast
3	chrX:55025600-55027200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
4	chrX:55025600-55027200	Active TSS	Primary B cells from cord blood	blood
5	chrX:55025600-55027200	Active TSS	Psoas Muscle	Psoas
6	chrX:55025600-55027400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chrX:55025600-55027400	Active TSS	Brain Cingulate Gyrus	brain
8	chrX:55025600-55027400	Active TSS	Brain Inferior Temporal Lobe	brain
9	chrX:55025600-55027400	Active TSS	Rectal Smooth Muscle	rectum
10	chrX:55025600-55027600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chrX:55025600-55027600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
12	chrX:55025600-55027800	Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chrX:55025600-55027800	Active TSS	Stomach Smooth Muscle	stomach
14	chrX:55025600-55027800	Active TSS	A549	lung
15	chrX:55025600-55028000	Active TSS	H1 Cell Line	embryonic stem cell
16	chrX:55025600-55028000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chrX:55025600-55028000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chrX:55025600-55028000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chrX:55025600-55028000	Active TSS	HUES48 Cell Line	embryonic stem cell
20	chrX:55025600-55028000	Active TSS	HUES64 Cell Line	embryonic stem cell
21	chrX:55025600-55028000	Active TSS	Rectal Mucosa Donor 29	rectum
22	chrX:55025600-55028000	Active TSS	HSMMtube	muscle
23	chrX:55025600-55028000	Active TSS	NHDF-Ad	bronchial
24	chrX:55025600-55028200	Active TSS	HUES6 Cell Line	embryonic stem cell
25	chrX:55025600-55028200	Active TSS	iPS-15b Cell Line	embryonic stem cell
26	chrX:55025600-55028200	Active TSS	iPS-20b Cell Line	embryonic stem cell
27	chrX:55025600-55028400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chrX:55025600-55028400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
29	chrX:55025600-55028600	Active TSS	GM12878-XiMat	blood
30	chrX:55025800-55027000	Bivalent/Poised TSS	Fetal Brain Female	brain
31	chrX:55025800-55027000	Bivalent/Poised TSS	Fetal Muscle Trunk	muscle
32	chrX:55025800-55027000	Bivalent/Poised TSS	Fetal Stomach	stomach
33	chrX:55025800-55027000	Active TSS	Rectal Mucosa Donor 31	rectum
34	chrX:55025800-55027200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chrX:55025800-55027200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
36	chrX:55025800-55027200	Active TSS	Brain Germinal Matrix	brain
37	chrX:55025800-55027200	Active TSS	Brain Hippocampus Middle	brain
38	chrX:55025800-55027200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
39	chrX:55025800-55027200	Active TSS	Thymus	Thymus
40	chrX:55025800-55027400	Active TSS	Cortex derived primary cultured neurospheres	brain
41	chrX:55025800-55027400	Active TSS	Brain Angular Gyrus	brain
42	chrX:55025800-55027400	Active TSS	Brain Anterior Caudate	brain
43	chrX:55025800-55027400	Active TSS	Brain Substantia Nigra	brain
44	chrX:55025800-55027400	Active TSS	Colon Smooth Muscle	Colon
45	chrX:55025800-55027400	Active TSS	Fetal Kidney	kidney
46	chrX:55025800-55027400	Active TSS	Pancreatic Islets	Pancreatic Islet
47	chrX:55025800-55027400	Active TSS	Fetal Thymus	thymus
48	chrX:55025800-55027400	Active TSS	Right Atrium	heart
49	chrX:55025800-55027600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
50	chrX:55025800-55027600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin

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