Variant report

Variant	rs10128001
Chromosome Location	chr1:71544839-71544840
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FAM48A	chr1:71544727-71544906	GM12878	blood:	n/a	n/a
2	POLR2A	chr1:71518050-71545780	K562	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:71528704..71533041-chr1:71544796..71547832,3	MCF-7	breast:
2	chr1:71524441..71526375-chr1:71544715..71546592,2	MCF-7	breast:
3	chr1:71537451..71540868-chr1:71542769..71545634,3	MCF-7	breast:
4	chr1:71538487..71540751-chr1:71543971..71546262,2	MCF-7	breast:
5	chr1:71517800..71519685-chr1:71543995..71546531,2	MCF-7	breast:

No data

Variant related genes	Relation type
ZRANB2-AS2	TF binding region
ENSG00000132485	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10493483	0.93[AMR][1000 genomes]
rs10518356	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11556475	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13376594	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17090802	0.80[CEU][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17090808	1.00[CEU][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17090925	0.86[AMR][1000 genomes]
rs17090932	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs17091001	0.93[AMR][1000 genomes]
rs17091015	0.89[AMR][1000 genomes]
rs17091024	0.93[AMR][1000 genomes]
rs17091028	0.89[AMR][1000 genomes]
rs2050066	1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs41287936	0.97[EUR][1000 genomes]
rs5671	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs5673	0.94[EUR][1000 genomes]
rs56752457	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs5676	0.94[EUR][1000 genomes]
rs5691	1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs58163483	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58281678	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58293304	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59834169	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60078028	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs726352	0.93[AMR][1000 genomes]
rs74087222	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs74090259	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7531741	0.95[EUR][1000 genomes]
rs7552415	1.00[CEU][hapmap];0.97[EUR][1000 genomes]

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:71535000-71545800	Weak transcription	Gastric	stomach
2	chr1:71537400-71545800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:71537400-71545800	Weak transcription	Lung	lung
4	chr1:71537600-71545000	Weak transcription	Fetal Brain Male	brain
5	chr1:71537600-71545000	Weak transcription	Stomach Mucosa	stomach
6	chr1:71537600-71545400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr1:71537600-71545400	Weak transcription	Aorta	Aorta
8	chr1:71537600-71545800	Weak transcription	Spleen	Spleen
9	chr1:71537800-71545400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr1:71540200-71545200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr1:71541600-71545400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr1:71541800-71545400	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr1:71541800-71545400	Weak transcription	Ovary	ovary
14	chr1:71541800-71545400	Weak transcription	Thymus	Thymus
15	chr1:71542000-71545200	Weak transcription	Psoas Muscle	Psoas
16	chr1:71542800-71545200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr1:71543400-71545000	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr1:71543600-71545000	Weak transcription	HSMMtube	muscle
19	chr1:71543600-71545200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr1:71543600-71545400	Weak transcription	Fetal Muscle Leg	muscle
21	chr1:71543600-71545400	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr1:71543600-71545800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr1:71543600-71545800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr1:71543600-71545800	Weak transcription	Esophagus	oesophagus
25	chr1:71543600-71545800	Weak transcription	Left Ventricle	heart
26	chr1:71543600-71545800	Weak transcription	Pancreas	Pancrea
27	chr1:71543600-71545800	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr1:71543600-71545800	Weak transcription	Small Intestine	intestine
29	chr1:71544000-71545000	Enhancers	Brain Germinal Matrix	brain
30	chr1:71544200-71545000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:71544200-71545000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr1:71544200-71545200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr1:71544200-71545200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr1:71544200-71545600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr1:71544200-71545800	Weak transcription	Primary B cells from peripheral blood	blood
36	chr1:71544200-71545800	Weak transcription	Fetal Muscle Trunk	muscle
37	chr1:71544400-71545000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr1:71544400-71545000	Genic enhancers	Primary T cells from cord blood	blood
39	chr1:71544400-71545000	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells short term culture	blood
40	chr1:71544400-71545000	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr1:71544400-71545000	Enhancers	Liver	Liver
42	chr1:71544400-71545000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr1:71544400-71545000	Transcr. at gene 5' and 3'	Osteobl	bone
44	chr1:71544400-71545200	Transcr. at gene 5' and 3'	Dnd41	blood
45	chr1:71544400-71545400	Weak transcription	Fetal Thymus	thymus
46	chr1:71544400-71545600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr1:71544400-71545600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr1:71544400-71547400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr1:71544400-71547600	Active TSS	Rectal Smooth Muscle	rectum
50	chr1:71544600-71545000	Weak transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links