Variant report

Variant	rs2821092
Chromosome Location	chr1:47729034-47729035
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:47662073..47663006-chr1:47728655..47729324,2	K562	blood:
2	chr1:47656407..47658667-chr1:47728325..47730226,2	K562	blood:
3	chr1:47644533..47645889-chr1:47727753..47729391,13	K562	blood:
4	chr1:47723807..47725523-chr1:47727010..47730134,4	K562	blood:
5	chr1:47693951..47697518-chr1:47723725..47731232,8	K562	blood:
6	chr1:47712928..47715830-chr1:47727975..47729744,2	K562	blood:
7	chr1:47721422..47724402-chr1:47728933..47730814,3	K562	blood:
8	chr1:47644525..47645379-chr1:47728226..47729169,2	MCF-7	breast:
9	chr1:47728110..47730065-chr1:47732683..47735078,2	K562	blood:
10	chr1:47727088..47730894-chr1:47732029..47735166,5	K562	blood:
11	chr1:47658286..47659515-chr1:47727734..47729196,7	K562	blood:
12	chr1:47658315..47659140-chr1:47728181..47729215,5	MCF-7	breast:
13	chr1:47728733..47731424-chr1:47736676..47738245,2	K562	blood:
14	chr1:47644890..47645487-chr1:47728224..47729085,3	MCF-7	breast:
15	chr1:47642334..47646964-chr1:47725886..47730593,7	K562	blood:

No data

Variant related genes	Relation type
ENSG00000162366	Chromatin interaction
ENSG00000225506	Chromatin interaction
ENSG00000162367	Chromatin interaction
ENSG00000224805	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10890475	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10890476	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10890477	0.85[AMR][1000 genomes]
rs11211504	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11211508	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11211513	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11211520	0.88[AMR][1000 genomes]
rs11211521	0.85[AMR][1000 genomes]
rs11211523	0.88[AMR][1000 genomes]
rs11578038	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11582877	0.88[AMR][1000 genomes]
rs12024163	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12039726	0.83[AMR][1000 genomes]
rs12040451	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12042624	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12046294	0.84[EUR][1000 genomes]
rs12047319	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12048407	0.88[AMR][1000 genomes]
rs12409549	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12566521	0.85[AMR][1000 genomes]
rs2306470	0.82[AMR][1000 genomes]
rs2472730	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2472731	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2742099	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2742103	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2758744	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2821089	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2897237	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3122616	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3125631	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3125635	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3125636	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3125644	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3923691	0.89[AMR][1000 genomes]
rs4463720	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56987466	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58688029	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59492977	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61782712	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61782733	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61784774	0.83[AMR][1000 genomes]
rs6660321	0.80[AMR][1000 genomes]
rs6697248	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7511699	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7532148	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7541522	0.88[AMR][1000 genomes]
rs7545281	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9436394	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9436429	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9436430	0.82[EUR][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	nsv441692	chr1:47713661-47729088	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
2	nsv822531	chr1:47713892-47730083	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:47705200-47766400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:47705600-47766400	Weak transcription	Primary T cells from cord blood	blood
3	chr1:47709800-47745000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:47712600-47735000	Weak transcription	NHDF-Ad	bronchial
5	chr1:47712600-47742600	Weak transcription	Fetal Lung	lung
6	chr1:47712800-47729600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr1:47712800-47745600	Weak transcription	Fetal Brain Female	brain
8	chr1:47713000-47736400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr1:47713200-47745800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr1:47713800-47745800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr1:47714400-47779200	Weak transcription	Small Intestine	intestine
12	chr1:47714600-47745800	Weak transcription	Primary B cells from cord blood	blood
13	chr1:47714600-47778400	Weak transcription	Fetal Heart	heart
14	chr1:47714800-47732000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr1:47714800-47741200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr1:47714800-47742800	Weak transcription	Fetal Kidney	kidney
17	chr1:47714800-47746000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:47715400-47730000	Strong transcription	HUES6 Cell Line	embryonic stem cell
19	chr1:47715400-47740000	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr1:47715600-47749200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr1:47715800-47735400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr1:47716600-47739200	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr1:47716600-47772600	Strong transcription	Dnd41	blood
24	chr1:47716800-47739000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr1:47717000-47745800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr1:47718200-47746000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr1:47718800-47730600	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr1:47718800-47739800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
29	chr1:47719800-47745800	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr1:47720200-47730400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr1:47720400-47730400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr1:47720400-47741400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr1:47720400-47757000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr1:47720600-47766400	Weak transcription	Brain Germinal Matrix	brain
35	chr1:47721000-47735400	Weak transcription	Fetal Muscle Leg	muscle
36	chr1:47721000-47749000	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr1:47721600-47766800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr1:47722800-47729400	Strong transcription	Fetal Thymus	thymus
39	chr1:47723400-47772400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr1:47724000-47732800	Weak transcription	Fetal Muscle Trunk	muscle
41	chr1:47724200-47732200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr1:47724600-47732000	Weak transcription	HepG2	liver
43	chr1:47724600-47739400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr1:47725200-47733200	Strong transcription	K562	blood
45	chr1:47725400-47729400	Strong transcription	Thymus	Thymus
46	chr1:47725600-47729200	Strong transcription	NH-A	brain
47	chr1:47726000-47745200	Weak transcription	Fetal Intestine Large	intestine
48	chr1:47726200-47745800	Weak transcription	Primary hematopoietic stem cells	blood
49	chr1:47726400-47734800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr1:47726600-47732000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links