Variant report

Variant	rs10924812
Chromosome Location	chr1:246871698-246871699
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:246867425..246870263-chr1:246871598..246874190,3	MCF-7	breast:
2	chr1:246857655..246865600-chr1:246867157..246874213,9	MCF-7	breast:
3	chr1:246869676..246875291-chr1:246885182..246892205,11	MCF-7	breast:
4	chr1:246871057..246874045-chr1:247092351..247094206,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143653	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10924816	0.86[EUR][1000 genomes]
rs12023715	0.82[EUR][1000 genomes]
rs12026095	0.83[EUR][1000 genomes]
rs12042435	0.86[TSI][hapmap]
rs55824115	0.89[EUR][1000 genomes]
rs55845134	0.89[EUR][1000 genomes]
rs58542205	0.85[EUR][1000 genomes]
rs6426330	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002805	chr1:246608164-246890518	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv535413	chr1:246608164-246890518	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv949571	chr1:246688635-247240863	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv873421	chr1:246818634-247044692	Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	esv2762192	chr1:246823857-247069232	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS 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	21 gene(s)	inside rSNPs	diseases
6	nsv1006271	chr1:246832606-247276182	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
7	nsv535416	chr1:246832606-247276182	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
8	nsv430413	chr1:246845971-246975015	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
9	nsv873422	chr1:246854862-247002638	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
10	nsv1011346	chr1:246868799-247133898	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10924812	OR14A16	cis	parietal	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:246862600-246872800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr1:246866600-246874000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr1:246867400-246872400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr1:246867400-246872600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr1:246869800-246872600	Enhancers	HepG2	liver
6	chr1:246869800-246873200	Enhancers	Liver	Liver
7	chr1:246870000-246872600	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr1:246870000-246873600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr1:246870200-246873200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr1:246870200-246873800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr1:246870400-246872400	Weak transcription	Fetal Intestine Large	intestine
12	chr1:246870600-246872000	Enhancers	Placenta	Placenta
13	chr1:246870800-246871800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr1:246870800-246873400	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr1:246870800-246873800	Enhancers	Small Intestine	intestine
16	chr1:246871000-246871800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr1:246871000-246871800	Enhancers	Placenta Amnion	Placenta Amnion
18	chr1:246871000-246873800	Enhancers	Primary B cells from cord blood	blood
19	chr1:246871400-246872400	Weak transcription	Primary hematopoietic stem cells	blood
20	chr1:246871400-246872400	Weak transcription	Fetal Intestine Small	intestine
21	chr1:246871400-246872400	Weak transcription	Stomach Mucosa	stomach
22	chr1:246871400-246874000	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr1:246871600-246872400	Enhancers	Monocytes-CD14+_RO01746	blood

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