Variant report

Variant	rs7901853
Chromosome Location	chr10:99082360-99082361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:99065771..99067454-chr10:99080586..99083013,2	MCF-7	breast:
2	chr10:99077823..99080785-chr10:99081286..99083420,3	MCF-7	breast:
3	chr10:99051582..99055310-chr10:99077169..99083058,6	K562	blood:

Variant related genes	Relation type
ENSG00000213390	Chromatin interaction
ENSG00000165879	Chromatin interaction
ENSG00000269891	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10736115	0.91[CEU][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap];0.81[MEX][hapmap];0.90[TSI][hapmap];0.83[EUR][1000 genomes]
rs10736116	0.80[EUR][1000 genomes]
rs10748691	0.82[CEU][hapmap];0.88[TSI][hapmap]
rs10748694	0.82[CEU][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs10786321	0.91[CEU][hapmap];0.80[GIH][hapmap];0.90[JPT][hapmap];0.81[MEX][hapmap];0.90[TSI][hapmap];0.83[EUR][1000 genomes]
rs10786323	0.85[EUR][1000 genomes]
rs10786324	0.81[EUR][1000 genomes]
rs10786326	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10786327	0.82[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10786329	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10786330	0.82[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10786332	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10786333	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10786334	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10786335	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10882881	0.82[CEU][hapmap]
rs10882883	0.84[CEU][hapmap]
rs10882884	0.82[CEU][hapmap];0.85[JPT][hapmap]
rs10882890	0.85[EUR][1000 genomes]
rs10882891	0.82[CEU][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes]
rs10882894	0.83[EUR][1000 genomes]
rs10882897	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882898	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882899	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11189120	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11189122	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11189127	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11189131	0.83[CEU][hapmap];0.81[GIH][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes]
rs11189132	0.87[CEU][hapmap];0.90[JPT][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189137	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11189138	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12221430	0.85[EUR][1000 genomes]
rs12413688	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12571098	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1334892	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1572437	0.83[EUR][1000 genomes]
rs1890966	0.86[ASN][1000 genomes]
rs2861875	0.82[CEU][hapmap];0.81[MEX][hapmap];0.88[TSI][hapmap]
rs3740512	0.87[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3740522	0.82[CEU][hapmap];0.85[JPT][hapmap];0.81[MEX][hapmap];0.88[TSI][hapmap]
rs3781373	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3814164	0.82[CEU][hapmap];0.81[MEX][hapmap];0.88[TSI][hapmap]
rs4917766	0.87[CEU][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];0.80[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4919087	0.82[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4919089	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4919090	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4919091	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61863767	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6584116	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7067835	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7076523	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7078288	0.87[CEU][hapmap];0.89[CHD][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap];0.90[TSI][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7080275	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7089634	0.87[EUR][1000 genomes]
rs945187	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs945189	0.87[CEU][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1041614	chr10:98928281-99083056	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1045553	chr10:98944397-99122203	Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv540750	chr10:98944397-99122203	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv831952	chr10:98998344-99145924	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv895914	chr10:99006083-99131676	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
7	nsv825533	chr10:99070570-99115599	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	nsv825534	chr10:99081505-99115599	Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7901853	MORN4	cis	parietal	SCAN

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99079800-99082400	Flanking Active TSS	Primary B cells from cord blood	blood
2	chr10:99080400-99085200	Weak transcription	A549	lung
3	chr10:99080600-99091200	Weak transcription	HMEC	breast
4	chr10:99080800-99082400	Flanking Active TSS	Brain Germinal Matrix	brain
5	chr10:99080800-99089800	Weak transcription	Dnd41	blood
6	chr10:99081200-99082400	Enhancers	Primary T cells fromperipheralblood	blood
7	chr10:99081200-99088000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr10:99081200-99091200	Weak transcription	Psoas Muscle	Psoas
9	chr10:99081200-99092600	Weak transcription	Aorta	Aorta
10	chr10:99081400-99082400	Enhancers	Primary B cells from peripheral blood	blood
11	chr10:99081400-99082400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr10:99081400-99082400	Enhancers	Spleen	Spleen
13	chr10:99081400-99082400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
14	chr10:99081400-99082600	Bivalent Enhancer	Fetal Muscle Leg	muscle
15	chr10:99081400-99086800	Weak transcription	Pancreas	Pancrea
16	chr10:99081400-99087400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr10:99081400-99088200	Weak transcription	Lung	lung
18	chr10:99081400-99088400	Weak transcription	Right Atrium	heart
19	chr10:99081400-99088800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr10:99081400-99089000	Weak transcription	Ovary	ovary
21	chr10:99081400-99089800	Weak transcription	Gastric	stomach
22	chr10:99081600-99082400	Enhancers	Brain Anterior Caudate	brain
23	chr10:99081600-99082400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
24	chr10:99081600-99082400	Bivalent Enhancer	Fetal Brain Female	brain
25	chr10:99081600-99082400	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr10:99081600-99083000	Enhancers	Adipose Nuclei	Adipose
27	chr10:99081600-99083600	Transcr. at gene 5' and 3'	Primary neutrophils fromperipheralblood	blood
28	chr10:99081600-99083800	Enhancers	Liver	Liver
29	chr10:99081600-99087200	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr10:99081600-99087800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:99081600-99088400	Weak transcription	Rectal Smooth Muscle	rectum
32	chr10:99081600-99089000	Weak transcription	Esophagus	oesophagus
33	chr10:99081600-99091000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr10:99081600-99091600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr10:99081600-99091600	Weak transcription	Fetal Kidney	kidney
36	chr10:99081600-99091600	Weak transcription	HSMMtube	muscle
37	chr10:99081800-99082400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
38	chr10:99081800-99082400	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr10:99081800-99082400	Enhancers	Primary hematopoietic stem cells short term culture	blood
40	chr10:99081800-99082400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr10:99081800-99082400	Enhancers	Brain Angular Gyrus	brain
42	chr10:99081800-99082400	Enhancers	Brain Hippocampus Middle	brain
43	chr10:99081800-99082400	Enhancers	Brain Inferior Temporal Lobe	brain
44	chr10:99081800-99082400	Enhancers	Duodenum Mucosa	Duodenum
45	chr10:99081800-99082600	Enhancers	Stomach Mucosa	stomach
46	chr10:99081800-99083000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr10:99081800-99083200	Enhancers	Brain Substantia Nigra	brain
48	chr10:99081800-99083400	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr10:99081800-99085200	Weak transcription	HepG2	liver
50	chr10:99081800-99085800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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