Variant report

Variant	rs10843507
Chromosome Location	chr12:29931056-29931057
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:29926045..29928762-chr12:29929311..29931905,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10843506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs302315	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs302317	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs302321	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs436124	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs439639	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs721617	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7312697	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][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	nsv529328	chr12:29692414-30246209	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv898953	chr12:29905322-29989292	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10843507	TMTC1	cis	Whole Blood	GTEx
rs10843507	TMTC1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:29916000-29931400	Weak transcription	Pancreas	Pancrea
2	chr12:29921600-29934000	Weak transcription	Fetal Kidney	kidney
3	chr12:29922600-29931800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr12:29922600-29934000	Weak transcription	NHLF	lung
5	chr12:29922800-29931200	Weak transcription	Aorta	Aorta
6	chr12:29922800-29933800	Weak transcription	Hela-S3	cervix
7	chr12:29924600-29931600	Weak transcription	Adipose Nuclei	Adipose
8	chr12:29925400-29934000	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr12:29925600-29934200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr12:29926400-29931400	Weak transcription	Ovary	ovary
11	chr12:29926400-29931600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr12:29926600-29931400	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr12:29927000-29931400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr12:29927200-29931400	Weak transcription	Fetal Heart	heart
15	chr12:29927200-29931800	Weak transcription	Right Atrium	heart
16	chr12:29927200-29931800	Weak transcription	Right Ventricle	heart
17	chr12:29927200-29931800	Weak transcription	Spleen	Spleen
18	chr12:29928800-29934800	Weak transcription	Fetal Muscle Trunk	muscle
19	chr12:29929200-29931800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr12:29929200-29931800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr12:29929200-29931800	Weak transcription	Fetal Muscle Leg	muscle
22	chr12:29929200-29932400	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr12:29929400-29932800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr12:29929400-29932800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr12:29929400-29933200	Weak transcription	HMEC	breast
26	chr12:29929800-29931400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr12:29929800-29931800	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr12:29929800-29931800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr12:29929800-29933800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr12:29930000-29931200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr12:29930000-29931800	Weak transcription	Left Ventricle	heart
32	chr12:29930000-29934200	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr12:29930000-29934200	Weak transcription	HSMM	muscle
34	chr12:29930400-29931600	Weak transcription	Psoas Muscle	Psoas
35	chr12:29930600-29931400	Enhancers	Stomach Smooth Muscle	stomach
36	chr12:29930800-29932200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr12:29930800-29932800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr12:29930800-29933600	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr12:29930800-29934400	Weak transcription	HSMMtube	muscle
40	chr12:29931000-29932200	Enhancers	Colon Smooth Muscle	Colon
41	chr12:29931000-29932400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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