Variant report

Variant	rs3784106
Chromosome Location	chr14:68780897-68780898
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:68771546..68782546-chr14:69251132..69265678,35	MCF-7	breast:
2	chr14:68778894..68781152-chr14:68792473..68795280,2	MCF-7	breast:
3	chr14:68779162..68780935-chr14:69252607..69255132,2	MCF-7	breast:
4	chr14:68780053..68783050-chr14:68784750..68787033,2	MCF-7	breast:
5	chr14:68778996..68781064-chr14:68869621..68871388,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185650	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10083393	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10131654	1.00[CEU][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10135678	0.97[EUR][1000 genomes]
rs10136039	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10144669	0.95[CEU][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10483807	0.97[GIH][hapmap]
rs11158728	0.88[GIH][hapmap]
rs11158730	0.97[GIH][hapmap]
rs11621881	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11627646	0.88[GIH][hapmap]
rs12880109	0.95[GIH][hapmap]
rs12889206	0.82[LWK][hapmap]
rs12890124	0.88[GIH][hapmap]
rs12892777	0.97[GIH][hapmap]
rs1956523	1.00[CEU][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1956525	0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1956526	0.84[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1956528	0.88[GIH][hapmap]
rs1956529	0.88[GIH][hapmap]
rs1956532	0.88[GIH][hapmap]
rs2013413	0.97[GIH][hapmap]
rs2064912	0.87[GIH][hapmap]
rs2064914	0.98[EUR][1000 genomes]
rs2145423	0.88[GIH][hapmap]
rs3784104	0.88[GIH][hapmap]
rs3784108	0.88[GIH][hapmap]
rs3784110	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs3784111	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4410007	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4899238	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4902566	1.00[CEU][hapmap];0.88[GIH][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62635808	0.98[ASN][1000 genomes]
rs7144422	0.99[ASN][1000 genomes]
rs7146110	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7147852	0.88[GIH][hapmap]
rs7148322	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7148412	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7149396	0.86[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7150988	0.88[GIH][hapmap]
rs7151629	1.00[CEU][hapmap];0.97[GIH][hapmap];0.97[TSI][hapmap];0.96[EUR][1000 genomes]
rs7493547	1.00[CEU][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8013078	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8013968	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8017304	0.88[GIH][hapmap]
rs8022860	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs911254	0.97[GIH][hapmap]
rs911255	1.00[CEU][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs911258	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs927220	0.95[CEU][hapmap];0.88[GIH][hapmap];0.90[TSI][hapmap];0.96[EUR][1000 genomes]
rs9323506	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9989152	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[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	nsv869154	chr14:68366754-69041768	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv428628	chr14:68674504-68835127	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:68769000-68810000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr14:68772000-68788400	Enhancers	Primary B cells from peripheral blood	blood
3	chr14:68772600-68788000	Weak transcription	Lung	lung
4	chr14:68774400-68785200	Weak transcription	Psoas Muscle	Psoas
5	chr14:68775800-68781000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr14:68776200-68781800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr14:68776200-68789400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr14:68776400-68785400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr14:68777000-68781800	Weak transcription	Small Intestine	intestine
10	chr14:68777000-68785800	Weak transcription	Colon Smooth Muscle	Colon
11	chr14:68777000-68792200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr14:68777000-68793400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr14:68777800-68781200	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr14:68777800-68785400	Weak transcription	Fetal Kidney	kidney
15	chr14:68778800-68781400	Enhancers	Brain Hippocampus Middle	brain
16	chr14:68778800-68782000	Enhancers	Primary B cells from cord blood	blood
17	chr14:68779000-68781400	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr14:68779000-68781400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr14:68779000-68781600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr14:68779000-68787400	Weak transcription	Primary T cells from cord blood	blood
21	chr14:68779200-68782200	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr14:68779400-68781800	Weak transcription	HepG2	liver
23	chr14:68779600-68781000	Enhancers	Fetal Stomach	stomach
24	chr14:68779600-68781200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr14:68779600-68781400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr14:68779600-68782200	Enhancers	Fetal Muscle Leg	muscle
27	chr14:68779600-68782800	Weak transcription	Liver	Liver
28	chr14:68779800-68781200	Enhancers	Brain Anterior Caudate	brain
29	chr14:68779800-68781600	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr14:68780000-68781000	Enhancers	Brain Cingulate Gyrus	brain
31	chr14:68780000-68781200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr14:68780000-68781200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr14:68780000-68781200	Enhancers	Spleen	Spleen
34	chr14:68780000-68781400	Enhancers	Fetal Brain Male	brain
35	chr14:68780200-68781000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
36	chr14:68780200-68781000	Enhancers	Brain Substantia Nigra	brain
37	chr14:68780200-68781200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr14:68780200-68781200	Enhancers	Fetal Thymus	thymus
39	chr14:68780200-68781200	Enhancers	Ovary	ovary
40	chr14:68780200-68784800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr14:68780400-68781400	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr14:68780400-68781400	Enhancers	GM12878-XiMat	blood
43	chr14:68780400-68781800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
44	chr14:68780400-68785200	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr14:68780400-68785200	Weak transcription	Fetal Muscle Trunk	muscle
46	chr14:68780400-68785400	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr14:68780600-68781200	Enhancers	K562	blood
48	chr14:68780600-68782200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr14:68780600-68784800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr14:68780600-68785200	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links