Variant report

Variant	rs2417084
Chromosome Location	chr9:103119277-103119278
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	CEBPB	chr9:103119132-103119426	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:103118918..103120711-chr9:103139170..103141171,2	MCF-7	breast:
2	chr9:103112743..103119519-chr9:103186928..103191502,9	MCF-7	breast:
3	chr9:103118204..103120395-chr9:103125148..103126687,2	K562	blood:

Variant related genes	Relation type
TEX10	TF binding region
ENSG00000066697	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10117799	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10118398	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118701	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10120244	0.98[ASN][1000 genomes]
rs10123866	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10123913	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10124133	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124893	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10125785	0.88[ASN][1000 genomes]
rs10760724	0.85[ASN][1000 genomes]
rs10819751	0.85[ASN][1000 genomes]
rs10819759	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10819761	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10819762	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10819764	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10819767	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989049	0.88[ASN][1000 genomes]
rs10989056	0.92[ASN][1000 genomes]
rs10989064	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989067	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989070	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789196	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12684939	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1338123	0.85[ASN][1000 genomes]
rs1338124	0.85[ASN][1000 genomes]
rs1338125	0.85[ASN][1000 genomes]
rs1930243	0.98[ASN][1000 genomes]
rs1930244	0.90[ASN][1000 genomes]
rs1961367	0.98[ASN][1000 genomes]
rs2026999	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2151131	0.90[ASN][1000 genomes]
rs2210498	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2245216	0.83[ASN][1000 genomes]
rs2417176	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2485745	0.82[ASN][1000 genomes]
rs2787368	0.87[ASN][1000 genomes]
rs2787369	0.87[ASN][1000 genomes]
rs2787371	0.85[ASN][1000 genomes]
rs2787372	0.87[ASN][1000 genomes]
rs2787373	0.87[ASN][1000 genomes]
rs2787375	0.87[ASN][1000 genomes]
rs2787377	0.88[ASN][1000 genomes]
rs2787380	0.83[ASN][1000 genomes]
rs2787381	0.83[ASN][1000 genomes]
rs2787383	0.85[ASN][1000 genomes]
rs2787385	0.83[ASN][1000 genomes]
rs2787388	0.85[ASN][1000 genomes]
rs2806692	0.85[ASN][1000 genomes]
rs2806693	0.82[ASN][1000 genomes]
rs2806694	0.82[ASN][1000 genomes]
rs2806695	0.83[ASN][1000 genomes]
rs2806696	0.85[ASN][1000 genomes]
rs2806702	0.88[ASN][1000 genomes]
rs2806703	0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs28464821	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3813712	0.88[ASN][1000 genomes]
rs3923501	0.88[ASN][1000 genomes]
rs4128230	0.92[ASN][1000 genomes]
rs4237195	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4237196	0.98[ASN][1000 genomes]
rs4446782	0.88[ASN][1000 genomes]
rs4742782	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4742783	0.95[ASN][1000 genomes]
rs4742784	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743392	0.88[ASN][1000 genomes]
rs4743393	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4743394	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743395	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743396	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5029342	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs5029343	0.88[ASN][1000 genomes]
rs59242794	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6479008	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6479009	0.88[ASN][1000 genomes]
rs6479013	0.83[ASN][1000 genomes]
rs6479014	0.98[ASN][1000 genomes]
rs7020988	0.88[ASN][1000 genomes]
rs7021310	0.98[ASN][1000 genomes]
rs7025891	0.97[ASN][1000 genomes]
rs7025938	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7035619	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7036570	0.98[ASN][1000 genomes]
rs7047694	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7048601	0.84[ASN][1000 genomes]
rs7472	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7849966	0.88[ASN][1000 genomes]
rs7852189	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7854693	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7860513	0.98[ASN][1000 genomes]
rs7864494	0.87[ASN][1000 genomes]
rs7866850	0.98[ASN][1000 genomes]
rs7869985	0.98[ASN][1000 genomes]
rs7871702	0.98[ASN][1000 genomes]
rs7874710	0.80[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7874900	0.98[ASN][1000 genomes]
rs7875775	0.98[ASN][1000 genomes]
rs914711	0.98[ASN][1000 genomes]
rs9299338	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs944710	0.98[ASN][1000 genomes]
rs946054	0.83[ASN][1000 genomes]
rs959893	0.95[ASN][1000 genomes]
rs9775014	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9775182	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531599	chr9:102227922-103156864	Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2417084	TEX10	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103115800-103119400	Weak transcription	Ovary	ovary
2	chr9:103115800-103119800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:103115800-103119800	Weak transcription	HUVEC	blood vessel
4	chr9:103116200-103119800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr9:103116200-103122400	Weak transcription	Fetal Heart	heart
6	chr9:103116200-103123400	Weak transcription	Fetal Muscle Leg	muscle
7	chr9:103116200-103126000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr9:103116600-103120800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:103116600-103131000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr9:103116800-103120600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr9:103117200-103120000	Weak transcription	HepG2	liver
12	chr9:103117200-103125800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr9:103117400-103121000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr9:103117400-103128400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr9:103117600-103122200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr9:103117800-103120000	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr9:103118200-103119800	Weak transcription	Primary B cells from peripheral blood	blood
18	chr9:103118800-103119400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr9:103119200-103120400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr9:103119200-103120600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:103119200-103120600	Enhancers	Primary hematopoietic stem cells short term culture	blood

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