Variant report

Variant	rs7099761
Chromosome Location	chr10:94335799-94335800
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:14)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:14 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr10:94335726-94336007	K562	blood:	n/a	n/a
2	STAT3	chr10:94335783-94336138	MCF10A-Er-Src	breast:	n/a	n/a
3	CEBPB	chr10:94335734-94336078	IMR90	lung:	n/a	n/a
4	MYC	chr10:94335738-94336106	NB4	blood:	n/a	n/a
5	FOS	chr10:94335672-94336173	MCF10A-Er-Src	breast:	n/a	n/a
6	SPI1	chr10:94335732-94336354	HL-60	blood:	n/a	chr10:94336207-94336220 chr10:94336213-94336222
7	STAT3	chr10:94335746-94336127	MCF10A-Er-Src	breast:	n/a	n/a
8	CEBPB	chr10:94335755-94336080	A549	lung:	n/a	n/a
9	CEBPB	chr10:94335724-94336090	Hela-S3	cervix:	n/a	n/a
10	FOS	chr10:94335677-94336068	MCF10A-Er-Src	breast:	n/a	n/a
11	FOS	chr10:94335679-94336114	MCF10A-Er-Src	breast:	n/a	n/a
12	FOS	chr10:94335672-94336148	MCF10A-Er-Src	breast:	n/a	n/a
13	MAX	chr10:94335734-94336166	NB4	blood:	n/a	n/a
14	MYC	chr10:94335737-94336036	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:94327650..94337583-chr10:94349444..94356782,22	K562	blood:
2	chr10:94334145..94336156-chr10:94441112..94444728,3	K562	blood:
3	chr10:94300885..94308768-chr10:94330971..94336052,7	K562	blood:
4	chr10:94330286..94336827-chr10:94349891..94354260,15	K562	blood:
5	chr10:94334190..94336878-chr10:94340281..94341907,2	K562	blood:
6	chr10:94332262..94336114-chr10:94349834..94354042,11	MCF-7	breast:
7	chr10:94332407..94336018-chr10:94349212..94353201,7	MCF-7	breast:
8	chr10:94333616..94336720-chr10:94448718..94451044,3	K562	blood:

No data

Variant related genes	Relation type
IDE	TF binding region
ENSG00000119912	Chromatin interaction
ENSG00000152804	Chromatin interaction
ENSG00000138160	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10509645	0.81[JPT][hapmap]
rs10786049	0.82[ASN][1000 genomes]
rs10882074	0.81[JPT][hapmap]
rs10882081	0.81[ASN][1000 genomes]
rs10882083	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11187033	0.81[JPT][hapmap]
rs11187072	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11187076	0.83[ASW][hapmap];0.89[GIH][hapmap];0.81[TSI][hapmap]
rs11187078	1.00[CHB][hapmap];0.87[JPT][hapmap];0.85[ASN][1000 genomes]
rs11187096	0.81[JPT][hapmap]
rs12220493	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2421943	0.88[CEU][hapmap];0.81[JPT][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2421945	0.89[CHB][hapmap];0.84[CHD][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs2798253	0.81[JPT][hapmap]
rs2901597	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3824735	0.82[JPT][hapmap]
rs4304670	0.89[CHB][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs6583823	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6583825	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7073833	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7076966	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7078243	0.88[GIH][hapmap]
rs7078418	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7900991	0.92[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs7905037	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7921210	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7921325	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats 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	esv1792868	chr10:94232247-94409749	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	nsv895894	chr10:94249982-94452430	Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv895895	chr10:94304132-94372706	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7099761	OPALIN	cis	cerebellum	SCAN
rs7099761	KIF11	cis	cerebellum	SCAN
rs7099761	ALDH18A1	cis	cerebellum	SCAN

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94334800-94336400	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr10:94335000-94335800	Weak transcription	K562	blood
3	chr10:94335000-94335800	Enhancers	NHDF-Ad	bronchial
4	chr10:94335000-94335800	Enhancers	NHLF	lung
5	chr10:94335000-94336000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr10:94335000-94336000	Enhancers	HUVEC	blood vessel
7	chr10:94335000-94336000	Enhancers	Osteobl	bone
8	chr10:94335000-94336200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr10:94335000-94336200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr10:94335000-94336200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr10:94335000-94336200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr10:94335000-94336200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:94335000-94336200	Enhancers	NH-A	brain
14	chr10:94335000-94336400	Enhancers	HSMM	muscle
15	chr10:94335000-94336600	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr10:94335000-94339600	Weak transcription	Brain Angular Gyrus	brain
17	chr10:94335200-94335800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:94335200-94335800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr10:94335200-94336000	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr10:94335200-94336200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr10:94335200-94336200	Enhancers	A549	lung
22	chr10:94335200-94336200	Enhancers	Hela-S3	cervix
23	chr10:94335200-94336400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr10:94335200-94336400	Enhancers	HMEC	breast
25	chr10:94335200-94336400	Enhancers	NHEK	skin
26	chr10:94335200-94336800	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr10:94335200-94338800	Weak transcription	Fetal Kidney	kidney
28	chr10:94335400-94335800	Weak transcription	Primary hematopoietic stem cells	blood
29	chr10:94335600-94335800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
30	chr10:94335600-94336000	Weak transcription	HepG2	liver
31	chr10:94335600-94336000	Enhancers	HSMMtube	muscle
32	chr10:94335600-94336200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr10:94335600-94336200	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links