Variant report

Variant	rs7862998
Chromosome Location	chr9:96212066-96212067
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:96212024..96217170-chr9:96326121..96330116,7	MCF-7	breast:
2	chr9:96211528..96214948-chr9:96337573..96343441,10	MCF-7	breast:
3	chr9:96069590..96071864-chr9:96210674..96213644,2	MCF-7	breast:
4	chr9:96210381..96218248-chr9:96327402..96333234,10	MCF-7	breast:
5	chr9:95857571..95862229-chr9:96211597..96216359,5	K562	blood:
6	chr9:96196696..96199442-chr9:96211213..96213936,2	K562	blood:
7	chr9:96211603..96213302-chr9:96293389..96295575,2	MCF-7	breast:
8	chr17:57917246..57919859-chr9:96211459..96213785,2	MCF-7	breast:
9	chr9:95820491..95823416-chr9:96211285..96213612,2	K562	blood:
10	chr9:96072987..96083429-chr9:96209751..96218385,15	MCF-7	breast:
11	chr9:96176371..96177896-chr9:96210682..96213241,2	MCF-7	breast:
12	chr1:209720785..209723139-chr9:96211827..96213695,2	MCF-7	breast:
13	chr9:96211672..96218862-chr9:96335264..96341672,16	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000227603	Chromatin interaction
ENSG00000223446	Chromatin interaction
ENSG00000199004	Chromatin interaction
ENSG00000165238	Chromatin interaction
ENSG00000165233	Chromatin interaction
ENSG00000263875	Chromatin interaction
ENSG00000157303	Chromatin interaction
ENSG00000048828	Chromatin interaction
ENSG00000197724	Chromatin interaction
ENSG00000224260	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10429558	0.84[EUR][1000 genomes]
rs11975	0.83[EUR][1000 genomes]
rs12341488	0.83[EUR][1000 genomes]
rs1331588	0.83[AFR][1000 genomes]
rs3815563	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3897285	0.94[AFR][1000 genomes]
rs4552973	0.81[AMR][1000 genomes]
rs55812345	0.94[AFR][1000 genomes]
rs59326991	0.93[AFR][1000 genomes]
rs59483310	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs59582399	0.83[AMR][1000 genomes]
rs60076242	0.83[EUR][1000 genomes]
rs60212988	0.83[AFR][1000 genomes]
rs6479482	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479483	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6479487	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6479494	0.85[EUR][1000 genomes]
rs6479495	0.85[EUR][1000 genomes]
rs7020459	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7023933	0.83[ASN][1000 genomes]
rs7025805	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7028729	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035657	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7036984	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7048853	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7850322	0.81[AMR][1000 genomes]
rs7853605	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7857183	0.83[EUR][1000 genomes]
rs7860098	0.83[EUR][1000 genomes]
rs7861929	0.94[AFR][1000 genomes]
rs7870210	0.83[EUR][1000 genomes]
rs7874126	0.94[AFR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs7862998	RP11-165J3.6	cis	Nerve Tibial	GTEx
rs7862998	RP11-165J3.6	cis	Artery Tibial	GTEx
rs7862998	RP11-165J3.6	cis	Thyroid	GTEx
rs7862998	RP11-165J3.6	cis	Skin Sun Exposed Lower leg	GTEx
rs7862998	RP11-165J3.6	cis	Esophagus Muscularis	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96197000-96212400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr9:96198000-96212600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:96207400-96212200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr9:96207400-96212400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:96207600-96212200	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:96207600-96212200	Strong transcription	Fetal Thymus	thymus
7	chr9:96207800-96212200	Strong transcription	Fetal Stomach	stomach
8	chr9:96208000-96212200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:96208000-96212200	Strong transcription	Skeletal Muscle Female	skeletal muscle
10	chr9:96208200-96212200	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr9:96208200-96212200	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:96208200-96212400	Strong transcription	Skeletal Muscle Male	skeletal muscle
13	chr9:96208200-96212600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr9:96208400-96212200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
15	chr9:96208400-96213000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:96208600-96212400	Weak transcription	Fetal Heart	heart
17	chr9:96209400-96212200	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr9:96210200-96212400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr9:96210400-96212400	Weak transcription	HSMM	muscle
20	chr9:96210400-96212400	Weak transcription	NHEK	skin
21	chr9:96210400-96212600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr9:96210400-96212600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr9:96210400-96212600	Weak transcription	Brain Hippocampus Middle	brain
24	chr9:96210400-96212600	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr9:96210400-96212600	Weak transcription	HSMMtube	muscle
26	chr9:96210400-96212600	Weak transcription	NHDF-Ad	bronchial
27	chr9:96210600-96212400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr9:96210600-96212400	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr9:96210600-96212400	Weak transcription	Rectal Smooth Muscle	rectum
30	chr9:96210600-96212400	Weak transcription	Spleen	Spleen
31	chr9:96210600-96212400	Weak transcription	NH-A	brain
32	chr9:96210600-96212600	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr9:96210800-96212200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr9:96210800-96212200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr9:96210800-96212200	Weak transcription	Esophagus	oesophagus
36	chr9:96210800-96212200	Weak transcription	Small Intestine	intestine
37	chr9:96210800-96212200	Weak transcription	K562	blood
38	chr9:96210800-96212400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr9:96210800-96212400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr9:96210800-96212400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr9:96210800-96212400	Weak transcription	Right Ventricle	heart
42	chr9:96210800-96212400	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr9:96210800-96212400	Weak transcription	Osteobl	bone
44	chr9:96210800-96212600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr9:96210800-96212600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr9:96210800-96212600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr9:96210800-96212600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr9:96210800-96212600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr9:96210800-96212600	Weak transcription	Aorta	Aorta
50	chr9:96210800-96212600	Weak transcription	Gastric	stomach

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