Variant report

Variant	rs10989081
Chromosome Location	chr9:103173304-103173305
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:103162892..103165922-chr9:103171980..103175521,3	MCF-7	breast:
2	chr9:103171653..103179256-chr9:103186952..103193020,13	MCF-7	breast:
3	chr9:103169579..103171733-chr9:103173238..103174816,2	K562	blood:
4	chr9:103114138..103117790-chr9:103172786..103175922,6	MCF-7	breast:
5	chr9:103172431..103174027-chr9:103177638..103179534,2	MCF-7	breast:
6	chr9:103169516..103171661-chr9:103172507..103175663,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000066697	Chromatin interaction
ENSG00000136891	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1000477	1.00[JPT][hapmap]
rs10465118	0.93[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs10465147	0.91[JPT][hapmap]
rs10465148	1.00[JPT][hapmap]
rs10465149	0.91[JPT][hapmap]
rs10512270	1.00[JPT][hapmap]
rs10512271	0.91[JPT][hapmap]
rs10819770	0.88[CHB][hapmap]
rs10819773	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10819774	0.93[CHB][hapmap]
rs10819775	1.00[AMR][1000 genomes]
rs10819776	1.00[JPT][hapmap]
rs10819782	0.91[JPT][hapmap]
rs10819785	0.91[JPT][hapmap]
rs10819787	0.91[JPT][hapmap]
rs10819788	1.00[JPT][hapmap]
rs10819789	1.00[JPT][hapmap]
rs10989078	0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[ASN][1000 genomes]
rs10989082	0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10989085	0.93[CHB][hapmap];0.91[JPT][hapmap];1.00[AMR][1000 genomes]
rs10989094	1.00[JPT][hapmap]
rs10989097	1.00[JPT][hapmap]
rs10989103	0.91[JPT][hapmap]
rs10989105	0.91[JPT][hapmap]
rs10989107	0.90[JPT][hapmap]
rs10989111	0.91[JPT][hapmap]
rs10989112	1.00[JPT][hapmap]
rs10989113	0.91[JPT][hapmap]
rs10989114	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs10989115	0.91[JPT][hapmap]
rs10989123	0.91[JPT][hapmap]
rs10989127	1.00[JPT][hapmap]
rs10989130	0.91[JPT][hapmap]
rs10989131	0.91[JPT][hapmap]
rs10989144	1.00[JPT][hapmap]
rs10989145	1.00[JPT][hapmap]
rs10989146	0.89[JPT][hapmap]
rs10989147	1.00[JPT][hapmap]
rs10989163	0.82[JPT][hapmap]
rs10989164	0.82[JPT][hapmap]
rs10989167	0.82[JPT][hapmap]
rs10989169	0.82[JPT][hapmap]
rs10989170	0.82[JPT][hapmap]
rs11793014	0.91[JPT][hapmap]
rs12004257	1.00[JPT][hapmap]
rs12056981	1.00[JPT][hapmap]
rs12236071	1.00[JPT][hapmap]
rs12237481	0.91[JPT][hapmap]
rs12238560	0.91[JPT][hapmap]
rs12683122	0.91[JPT][hapmap]
rs12683548	1.00[JPT][hapmap]
rs12683889	0.82[JPT][hapmap]
rs12684438	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12684454	0.91[JPT][hapmap]
rs1332598	1.00[JPT][hapmap]
rs16919174	1.00[JPT][hapmap]
rs1930246	1.00[JPT][hapmap]
rs2026423	1.00[JPT][hapmap]
rs2069236	1.00[JPT][hapmap]
rs2151106	0.91[JPT][hapmap]
rs2183989	0.91[JPT][hapmap]
rs2183990	0.93[CHB][hapmap];0.91[JPT][hapmap]
rs2183991	0.93[CHB][hapmap];0.91[JPT][hapmap]
rs2274881	1.00[JPT][hapmap]
rs2274882	1.00[JPT][hapmap]
rs7028822	1.00[JPT][hapmap]
rs7029001	0.91[JPT][hapmap]
rs7031884	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[ASN][1000 genomes]
rs7042669	0.91[JPT][hapmap]
rs7046596	1.00[ASN][1000 genomes]
rs7046659	1.00[JPT][hapmap]
rs72733399	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72735107	1.00[AMR][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	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
2	nsv825012	chr9:103152205-103256281	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103169400-103173600	Weak transcription	Right Atrium	heart
2	chr9:103169800-103173600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:103171400-103173400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr9:103171400-103173400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr9:103171400-103173600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr9:103171600-103173400	Weak transcription	HepG2	liver
7	chr9:103171600-103173600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:103171800-103173600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:103172400-103173600	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr9:103172400-103174600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
11	chr9:103172600-103173600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr9:103173200-103173400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
13	chr9:103173200-103173400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
14	chr9:103173200-103173400	Enhancers	Primary B cells from cord blood	blood
15	chr9:103173200-103173400	Enhancers	Primary T cells from cord blood	blood
16	chr9:103173200-103173400	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr9:103173200-103173400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr9:103173200-103173400	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr9:103173200-103173400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:103173200-103173400	Enhancers	Brain Cingulate Gyrus	brain
21	chr9:103173200-103173400	Enhancers	Brain Germinal Matrix	brain
22	chr9:103173200-103173400	Active TSS	Brain Hippocampus Middle	brain
23	chr9:103173200-103173400	Active TSS	Brain Inferior Temporal Lobe	brain
24	chr9:103173200-103173400	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr9:103173200-103173400	Enhancers	Fetal Brain Female	brain
26	chr9:103173200-103173400	Active TSS	A549	lung
27	chr9:103173200-103173400	Enhancers	Hela-S3	cervix
28	chr9:103173200-103173600	Enhancers	H1 Cell Line	embryonic stem cell
29	chr9:103173200-103173600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr9:103173200-103173600	Enhancers	Fetal Muscle Leg	muscle
31	chr9:103173200-103174800	Active TSS	Rectal Smooth Muscle	rectum

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