Variant report

Variant	rs2589579
Chromosome Location	chr1:220749638-220749639
allele	C/T
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	ATF3	chr1:220749474-220749715	K562	blood:	n/a	n/a
2	GATA3	chr1:220749256-220749826	SK-N-SH	brain:	n/a	chr1:220749398-220749410 chr1:220749396-220749412
3	SETDB1	chr1:220749406-220749713	U2OS	brain:	n/a	n/a
4	FOS	chr1:220749493-220749734	MCF10A-Er-Src	breast:	n/a	n/a
5	FOS	chr1:220749534-220749689	MCF10A-Er-Src	breast:	n/a	n/a
6	PBX3	chr1:220749428-220749864	SK-N-SH	brain:	n/a	n/a
7	FOS	chr1:220749474-220749684	MCF10A-Er-Src	breast:	n/a	n/a
8	STAT3	chr1:220749532-220749747	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:220749131..220751200-chr1:220751279..220752984,2	K562	blood:
2	chr1:220749189..220751737-chr1:220755091..220757350,2	K562	blood:

Variant related genes	Relation type
RN7SL464P	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10779410	0.89[ASW][hapmap]
rs11118581	0.86[YRI][hapmap]
rs11118583	0.95[YRI][hapmap]
rs12082031	1.00[YRI][hapmap]
rs12095659	1.00[MEX][hapmap]
rs1337570	1.00[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs1361092	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs1361093	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs1538135	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs1890107	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs1933004	0.91[AFR][1000 genomes]
rs2095670	1.00[ASW][hapmap];0.96[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2210977	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs2589582	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs2589587	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes]
rs2589591	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2589593	0.95[YRI][hapmap];0.96[AFR][1000 genomes]
rs2589594	0.92[AFR][1000 genomes]
rs2786599	1.00[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2786603	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs2786608	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2786611	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs2786615	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2786618	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2994526	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs3010236	0.94[AFR][1000 genomes]
rs4846656	1.00[YRI][hapmap];0.96[AFR][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:220748000-220755600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr1:220748000-220762200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr1:220748200-220752400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr1:220748200-220762200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:220748200-220769200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr1:220748400-220762400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr1:220748400-220767200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr1:220748400-220773200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr1:220748600-220750200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr1:220748600-220751000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr1:220748600-220769800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr1:220748800-220770400	Weak transcription	Fetal Muscle Leg	muscle
13	chr1:220749000-220752600	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr1:220749000-220767000	Weak transcription	Fetal Muscle Trunk	muscle
15	chr1:220749400-220749800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr1:220749600-220749800	ZNF genes & repeats	Aorta	Aorta

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