Variant report

Variant	rs60292858
Chromosome Location	chr4:87735361-87735362
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17012081	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17012088	0.83[AFR][1000 genomes]
rs6830521	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6836307	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73838343	0.83[AFR][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	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv830001	chr4:87585278-87748643	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87635200-87737400	Weak transcription	Fetal Brain Male	brain
2	chr4:87639400-87739200	Weak transcription	A549	lung
3	chr4:87642400-87735800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr4:87661600-87737800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr4:87689400-87738200	Weak transcription	Gastric	stomach
6	chr4:87690000-87738800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr4:87690800-87736000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr4:87694400-87735600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr4:87698600-87738600	Weak transcription	Brain Angular Gyrus	brain
10	chr4:87712000-87736600	Weak transcription	Fetal Muscle Trunk	muscle
11	chr4:87712600-87735800	Weak transcription	Brain Germinal Matrix	brain
12	chr4:87712600-87737600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr4:87712600-87738400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr4:87712600-87751400	Weak transcription	Aorta	Aorta
15	chr4:87712800-87736400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr4:87712800-87737000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr4:87712800-87739600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr4:87715800-87737400	Weak transcription	Colon Smooth Muscle	Colon
19	chr4:87717200-87737000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr4:87719200-87738600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:87719400-87738000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr4:87720000-87736200	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr4:87722600-87736400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr4:87723800-87736200	Strong transcription	HUES64 Cell Line	embryonic stem cell
25	chr4:87723800-87736200	Weak transcription	Fetal Brain Female	brain
26	chr4:87724000-87737000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr4:87724600-87737600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr4:87724800-87736400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr4:87725800-87739200	Weak transcription	Hela-S3	cervix
30	chr4:87726600-87735600	Weak transcription	NH-A	brain
31	chr4:87727200-87736400	Weak transcription	Left Ventricle	heart
32	chr4:87727800-87737200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr4:87728200-87736200	Weak transcription	Fetal Intestine Small	intestine
34	chr4:87728400-87736400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr4:87728600-87736400	Strong transcription	HUES6 Cell Line	embryonic stem cell
36	chr4:87728600-87737200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr4:87728600-87737200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr4:87728600-87737800	Strong transcription	HMEC	breast
39	chr4:87728800-87736600	Weak transcription	Primary hematopoietic stem cells	blood
40	chr4:87728800-87737000	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr4:87729200-87736000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr4:87729200-87736400	Weak transcription	Fetal Intestine Large	intestine
43	chr4:87729600-87738200	Weak transcription	Small Intestine	intestine
44	chr4:87730600-87736800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr4:87730800-87736200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr4:87731200-87737200	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr4:87731200-87756000	Weak transcription	Pancreas	Pancrea
48	chr4:87731800-87735800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr4:87732200-87737600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr4:87732400-87760000	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links