Variant report

Variant	rs28729203
Chromosome Location	chr7:127031917-127031918
allele	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:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:19 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:127028627..127034604-chr7:127290902..127294330,10	K562	blood:
2	chr7:127031057..127033330-chr7:127290561..127293507,3	MCF-7	breast:
3	chr7:126892951..126894660-chr7:127031651..127034423,2	MCF-7	breast:
4	chr7:126891429..126894759-chr7:127030328..127033331,3	K562	blood:
5	chr7:127030999..127034277-chr7:127071570..127073569,4	K562	blood:
6	chr7:124568199..124570049-chr7:127030538..127032262,2	K562	blood:
7	chr7:127029421..127032644-chr7:127225849..127230043,4	K562	blood:
8	chr7:127011403..127015656-chr7:127030018..127033626,5	MCF-7	breast:
9	chr7:127031743..127033878-chr8:109462577..109465197,2	K562	blood:
10	chr7:127029920..127034279-chr7:127291168..127294285,4	MCF-7	breast:
11	chr10:88818573..88820601-chr7:127031334..127033710,2	MCF-7	breast:
12	chr7:126985549..126992875-chr7:127029251..127034121,12	K562	blood:
13	chr7:127029926..127034103-chr7:127290516..127296284,10	K562	blood:
14	chr17:57914420..57916265-chr7:127031107..127033179,2	MCF-7	breast:
15	chr7:127030656..127034603-chr7:127225190..127230310,7	MCF-7	breast:
16	chr7:126892205..126895115-chr7:127030974..127032697,2	MCF-7	breast:
17	chr7:127030702..127032822-chr7:127225677..127228410,2	K562	blood:
18	chr7:126986612..126990415-chr7:127030676..127033732,5	MCF-7	breast:
19	chr7:126987100..126989492-chr7:127030062..127031935,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000240790	Chromatin interaction
ENSG00000197157	Chromatin interaction
ENSG00000128513	Chromatin interaction
ENSG00000224138	Chromatin interaction
ENSG00000179603	Chromatin interaction
ENSG00000048405	Chromatin interaction
ENSG00000179562	Chromatin interaction
ENSG00000062716	Chromatin interaction
ENSG00000224897	Chromatin interaction
ENSG00000148672	Chromatin interaction
ENSG00000004059	Chromatin interaction
ENSG00000104412	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10226106	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10235028	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10249162	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10249166	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10253737	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10254399	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10255062	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10263603	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10279882	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1057454	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10954148	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11563470	0.83[EUR][1000 genomes]
rs1361938	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1361940	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1419392	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1419394	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1419395	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1419405	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1419418	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1419419	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1419420	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1419421	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1419423	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1946107	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1946108	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2027952	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2106181	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2269728	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2269729	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2285338	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2402859	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4728068	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4731352	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4731353	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4731354	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4731355	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4731356	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4731357	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4731358	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4731359	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6467120	0.82[EUR][1000 genomes]
rs6467122	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6467123	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6467124	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67076804	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6957320	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6962137	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6973862	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6978090	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6979232	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs712696	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7777556	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7786199	0.83[EUR][1000 genomes]
rs7811565	0.93[ASN][1000 genomes]
rs951992	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9656363	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9791822	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9791825	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs986584	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs987384	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[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	esv3373113	chr7:127030941-127033489	Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	20 gene(s)	inside rSNPs	diseases
2	nsv820163	chr7:127031590-127033207	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Weak transcription	TF binding region CpG island Chromatin interactive region	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:127030200-127032000	Transcr. at gene 5' and 3'	Dnd41	blood
2	chr7:127030600-127032000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr7:127030800-127033000	Active TSS	HMEC	breast
4	chr7:127030800-127033200	Active TSS	GM12878-XiMat	blood
5	chr7:127031000-127033200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr7:127031000-127033200	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
7	chr7:127031200-127033000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
8	chr7:127031200-127033200	Active TSS	HSMM	muscle
9	chr7:127031200-127033400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr7:127031200-127033400	Active TSS	A549	lung
11	chr7:127031200-127033600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr7:127031200-127033800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
13	chr7:127031200-127033800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
14	chr7:127031200-127034000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
15	chr7:127031200-127034000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr7:127031200-127034000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
17	chr7:127031200-127034000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr7:127031200-127034200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
19	chr7:127031200-127034200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr7:127031200-127034200	Active TSS	Psoas Muscle	Psoas
21	chr7:127031200-127034200	Active TSS	Right Atrium	heart
22	chr7:127031400-127032000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr7:127031400-127032600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr7:127031400-127033000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr7:127031400-127033200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
26	chr7:127031400-127033200	Active TSS	Primary T helper naive cells from peripheral blood	blood
27	chr7:127031400-127033200	Active TSS	Primary T helper cells PMA-I stimulated	--
28	chr7:127031400-127033200	Active TSS	Stomach Mucosa	stomach
29	chr7:127031400-127033200	Active TSS	Hela-S3	cervix
30	chr7:127031400-127033400	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr7:127031400-127033400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr7:127031400-127033400	Active TSS	Esophagus	oesophagus
33	chr7:127031400-127033400	Active TSS	Fetal Intestine Large	intestine
34	chr7:127031400-127033400	Active TSS	Fetal Muscle Trunk	muscle
35	chr7:127031400-127033600	Active TSS	H9 Cell Line	embryonic stem cell
36	chr7:127031400-127033600	Active TSS	Gastric	stomach
37	chr7:127031400-127033800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr7:127031400-127034000	Active TSS	Pancreatic Islets	Pancreatic Islet
39	chr7:127031400-127034000	Active TSS	Ovary	ovary
40	chr7:127031400-127034200	Active TSS	Colon Smooth Muscle	Colon
41	chr7:127031600-127032000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr7:127031600-127032400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
43	chr7:127031600-127033200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr7:127031600-127033200	Active TSS	Primary hematopoietic stem cells short term culture	blood
45	chr7:127031600-127033200	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
46	chr7:127031600-127033200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr7:127031600-127033200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
48	chr7:127031600-127033200	Active TSS	Cortex derived primary cultured neurospheres	brain
49	chr7:127031600-127033200	Active TSS	Fetal Intestine Small	intestine
50	chr7:127031600-127033200	Active TSS	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links