Variant report

Variant	rs28671277
Chromosome Location	chr14:69016367-69016368
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:69015136..69018224-chr14:69257957..69260697,4	MCF-7	breast:
2	chr14:68994426..68996258-chr14:69013993..69016421,2	MCF-7	breast:
3	chr14:68752714..68755212-chr14:69016133..69017803,2	MCF-7	breast:
4	chr14:69013020..69016426-chr14:69030419..69035616,4	MCF-7	breast:
5	chr14:68989438..68991863-chr14:69015676..69017457,2	MCF-7	breast:
6	chr14:69014687..69017316-chr14:69017983..69019961,2	MCF-7	breast:
7	chr14:69014425..69017204-chr14:69022282..69023965,2	K562	blood:

Variant related genes	Relation type
ENSG00000185650	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10130177	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10134240	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10137367	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10147979	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10148391	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10483810	1.00[ASN][1000 genomes]
rs10483811	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11849344	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105810	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105812	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105828	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105829	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28377700	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28454359	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28492919	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28558877	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59404246	1.00[ASN][1000 genomes]
rs6573841	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72727502	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72729521	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8016149	0.81[EUR][1000 genomes]
rs8017678	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9323515	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv832822	chr14:68874640-69060272	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv516239	chr14:69010690-69025870	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69002400-69016600	Weak transcription	Gastric	stomach
2	chr14:69009000-69023600	Enhancers	Fetal Muscle Leg	muscle
3	chr14:69009200-69016600	Enhancers	Colon Smooth Muscle	Colon
4	chr14:69009400-69017600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr14:69010400-69017000	Enhancers	Pancreas	Pancrea
6	chr14:69010400-69018600	Enhancers	Fetal Stomach	stomach
7	chr14:69010800-69017800	Enhancers	Stomach Mucosa	stomach
8	chr14:69011400-69018000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr14:69012600-69017200	Enhancers	Lung	lung
10	chr14:69012600-69018400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr14:69012800-69019400	Enhancers	Left Ventricle	heart
12	chr14:69012800-69022000	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr14:69013000-69019200	Enhancers	Right Atrium	heart
14	chr14:69013400-69018600	Enhancers	Ovary	ovary
15	chr14:69013400-69022600	Enhancers	HUVEC	blood vessel
16	chr14:69013600-69019000	Enhancers	Fetal Heart	heart
17	chr14:69013600-69019800	Enhancers	Fetal Kidney	kidney
18	chr14:69013600-69021200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr14:69013600-69022600	Enhancers	Adipose Nuclei	Adipose
20	chr14:69013800-69017000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr14:69013800-69017200	Enhancers	Fetal Muscle Trunk	muscle
22	chr14:69013800-69017400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr14:69013800-69017400	Enhancers	Fetal Intestine Large	intestine
24	chr14:69013800-69018200	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr14:69013800-69018200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr14:69014000-69017400	Enhancers	Fetal Thymus	thymus
27	chr14:69014000-69018200	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr14:69014000-69018400	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr14:69014000-69018600	Enhancers	Fetal Brain Male	brain
30	chr14:69014200-69017000	Enhancers	Spleen	Spleen
31	chr14:69014200-69018200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr14:69014200-69018200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr14:69014200-69018600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr14:69014200-69021000	Weak transcription	Small Intestine	intestine
35	chr14:69014400-69017800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr14:69014400-69018800	Weak transcription	Primary B cells from peripheral blood	blood
37	chr14:69014400-69019400	Enhancers	Placenta	Placenta
38	chr14:69014400-69022600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr14:69014400-69022800	Enhancers	Rectal Smooth Muscle	rectum
40	chr14:69014600-69016800	Weak transcription	HepG2	liver
41	chr14:69014600-69017400	Enhancers	H9 Cell Line	embryonic stem cell
42	chr14:69014600-69017800	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr14:69014800-69016800	Enhancers	A549	lung
44	chr14:69015000-69016800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr14:69015000-69017800	Enhancers	HSMM	muscle
46	chr14:69015400-69020400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr14:69015600-69016600	Weak transcription	Brain Anterior Caudate	brain
48	chr14:69015600-69016800	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr14:69015600-69017200	Enhancers	NH-A	brain
50	chr14:69015600-69017400	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links