Variant report

Variant	rs424028
Chromosome Location	chr7:101784718-101784719
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:101779605..101781887-chr7:101783457..101786248,2	MCF-7	breast:
2	chr7:101783854..101785897-chr7:101787685..101790178,2	K562	blood:

Extended variants
information (count: 46 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10243429	0.84[CEU][hapmap]
rs10259857	0.82[CEU][hapmap]
rs10271376	0.84[CEU][hapmap]
rs10277680	0.84[CEU][hapmap]
rs10953358	0.84[ASN][1000 genomes]
rs12538286	0.84[CEU][hapmap]
rs12539846	0.84[CEU][hapmap]
rs1637257	0.84[ASN][1000 genomes]
rs16869536	1.00[JPT][hapmap]
rs1734879	0.84[ASN][1000 genomes]
rs17496657	0.84[CEU][hapmap]
rs201435	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs201436	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs201441	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201442	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201443	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201445	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201446	0.84[ASN][1000 genomes]
rs201447	0.84[ASN][1000 genomes]
rs201448	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201449	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201450	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201451	0.84[ASN][1000 genomes]
rs201452	0.84[ASN][1000 genomes]
rs201453	0.84[ASN][1000 genomes]
rs201454	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201455	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201456	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201457	0.84[ASN][1000 genomes]
rs201458	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201459	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs201461	0.84[ASN][1000 genomes]
rs201468	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2529373	0.81[ASN][1000 genomes]
rs34247954	0.84[ASN][1000 genomes]
rs382270	1.00[JPT][hapmap]
rs382934	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs386207	1.00[JPT][hapmap]
rs395848	1.00[JPT][hapmap]
rs424549	0.82[AMR][1000 genomes]
rs6959475	0.84[CEU][hapmap]
rs6976246	1.00[JPT][hapmap]
rs7776498	0.84[CEU][hapmap]
rs7788329	1.00[JPT][hapmap]
rs7798358	0.84[CEU][hapmap]
rs7800374	1.00[JPT][hapmap]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs424028	ZNF3	cis	cerebellum	SCAN
rs424028	CUX1	cis	parietal	SCAN
rs424028	TRIM4	cis	cerebellum	SCAN
rs424028	STAG3	cis	cerebellum	SCAN
rs424028	CUX1	cis	cerebellum	SCAN
rs424028	SH2B2	cis	lymphoblastoid	seeQTL
rs424028	EPHB4	cis	parietal	SCAN

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:101755200-101787000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr7:101760200-101796000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr7:101760400-101788600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr7:101760400-101789400	Weak transcription	Right Ventricle	heart
5	chr7:101760400-101795800	Weak transcription	Left Ventricle	heart
6	chr7:101761000-101795600	Weak transcription	Colon Smooth Muscle	Colon
7	chr7:101763600-101790400	Weak transcription	Brain Anterior Caudate	brain
8	chr7:101765200-101788600	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr7:101765200-101801200	Weak transcription	Pancreas	Pancrea
10	chr7:101765600-101801000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr7:101766000-101796000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr7:101766000-101796000	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr7:101766000-101796000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr7:101766200-101793800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr7:101766200-101796000	Weak transcription	Esophagus	oesophagus
16	chr7:101766200-101796600	Weak transcription	Brain Germinal Matrix	brain
17	chr7:101768000-101793800	Weak transcription	K562	blood
18	chr7:101768800-101790200	Weak transcription	Spleen	Spleen
19	chr7:101768800-101793800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr7:101768800-101795200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr7:101769000-101789600	Weak transcription	HSMM	muscle
22	chr7:101769000-101790000	Weak transcription	Ovary	ovary
23	chr7:101769000-101792400	Weak transcription	Gastric	stomach
24	chr7:101769000-101795000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr7:101769000-101795400	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr7:101769000-101795800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr7:101769000-101795800	Weak transcription	Stomach Smooth Muscle	stomach
28	chr7:101771200-101795400	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr7:101771400-101796600	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr7:101771800-101785400	Weak transcription	Fetal Muscle Trunk	muscle
31	chr7:101772000-101795200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr7:101772000-101796800	Weak transcription	Liver	Liver
33	chr7:101772000-101801600	Weak transcription	Duodenum Mucosa	Duodenum
34	chr7:101772600-101785000	Weak transcription	Fetal Intestine Large	intestine
35	chr7:101773400-101795400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr7:101773600-101792800	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr7:101773600-101795200	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr7:101773600-101795800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr7:101773600-101801200	Weak transcription	Aorta	Aorta
40	chr7:101773800-101785600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr7:101773800-101796000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr7:101774200-101801200	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr7:101776200-101792000	Strong transcription	Fetal Intestine Small	intestine
44	chr7:101777400-101812800	Weak transcription	Fetal Lung	lung
45	chr7:101777600-101790400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr7:101777600-101795200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr7:101777800-101785600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr7:101777800-101790600	Weak transcription	Osteobl	bone
49	chr7:101777800-101796600	Weak transcription	NHLF	lung
50	chr7:101778000-101793600	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links