Variant report

Variant	rs35035794
Chromosome Location	chr14:39585976-39585977
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	chr14:39582622..39586619-chr14:39638047..39642701,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000182400	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10130972	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10133797	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10136536	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10140341	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10149120	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10151683	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12147991	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12437405	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12883061	0.82[EUR][1000 genomes]
rs12891258	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12894046	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13379360	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17108846	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2737721	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2737729	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2753606	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28379470	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28485301	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28502115	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2869	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28810420	0.83[EUR][1000 genomes]
rs28856917	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34642409	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34816815	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35224434	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35423721	0.83[EUR][1000 genomes]
rs35992529	0.83[EUR][1000 genomes]
rs3742354	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3759545	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4143954	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4902405	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4902406	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4902418	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4902431	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4902435	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4902448	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58851254	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6571893	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs67248626	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71407780	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7147194	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7153124	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8006879	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9322994	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[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	esv3429206	chr14:39160730-39648836	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv1038622	chr14:39423562-39604035	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35035794	SIP1	Cis_1M	lymphoblastoid	RTeQTL
rs35035794	TRAPPC6B	cis	multi-tissue	Pritchard

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39583800-39588000	Weak transcription	Gastric	stomach
2	chr14:39583800-39626000	Weak transcription	Spleen	Spleen
3	chr14:39584000-39588000	Weak transcription	Lung	lung
4	chr14:39584000-39588200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr14:39584000-39590000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr14:39584000-39595000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr14:39584000-39615000	Weak transcription	Pancreas	Pancrea
8	chr14:39584000-39623600	Weak transcription	Esophagus	oesophagus
9	chr14:39584200-39588000	Weak transcription	Ovary	ovary
10	chr14:39584200-39592000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr14:39584200-39610800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr14:39584200-39636000	Weak transcription	Small Intestine	intestine
13	chr14:39584200-39638600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr14:39584400-39586000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr14:39584400-39586000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr14:39584400-39586600	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr14:39584400-39587000	Weak transcription	NHDF-Ad	bronchial
18	chr14:39584400-39587200	Weak transcription	Placenta	Placenta
19	chr14:39584400-39587200	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr14:39584400-39587400	Weak transcription	Brain Anterior Caudate	brain
21	chr14:39584400-39587400	Weak transcription	NH-A	brain
22	chr14:39584400-39587600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr14:39584400-39587600	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr14:39584400-39588000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr14:39584400-39588200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr14:39584400-39588200	Weak transcription	HSMMtube	muscle
27	chr14:39584400-39591400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr14:39584400-39591800	Weak transcription	Right Ventricle	heart
29	chr14:39584400-39592000	Weak transcription	Brain Substantia Nigra	brain
30	chr14:39584400-39592000	Weak transcription	Fetal Kidney	kidney
31	chr14:39584400-39593400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr14:39584400-39617200	Weak transcription	Psoas Muscle	Psoas
33	chr14:39584400-39620800	Weak transcription	Colonic Mucosa	Colon
34	chr14:39584400-39626600	Weak transcription	Aorta	Aorta
35	chr14:39584600-39586000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr14:39584600-39586000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr14:39584600-39586000	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr14:39584600-39586000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr14:39584600-39586000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr14:39584600-39586000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr14:39584600-39586000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr14:39584600-39586600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr14:39584600-39586600	Weak transcription	Adipose Nuclei	Adipose
44	chr14:39584600-39586600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr14:39584600-39586800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr14:39584600-39586800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr14:39584600-39586800	Weak transcription	Primary B cells from peripheral blood	blood
48	chr14:39584600-39586800	Weak transcription	Fetal Thymus	thymus
49	chr14:39584600-39587000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr14:39584600-39587000	Weak transcription	Osteobl	bone

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