Variant report

Variant	rs6727383
Chromosome Location	chr2:173849999-173850000
allele	A/G
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:173849114..173850688-chr2:173850735..173852782,2	K562	blood:
2	chr2:173848627..173852133-chr2:173863177..173865329,4	MCF-7	breast:
3	chr2:173844924..173850688-chr2:173851282..173855756,6	K562	blood:
4	chr2:173848162..173850898-chr2:173858454..173860280,2	MCF-7	breast:
5	chr2:173849631..173852622-chr2:173858056..173860174,2	K562	blood:
6	chr2:173849354..173852622-chr2:173856420..173860174,4	K562	blood:
7	chr2:173846731..173848275-chr2:173848312..173850706,2	K562	blood:
8	chr2:173849142..173852598-chr2:173855356..173861233,5	MCF-7	breast:
9	chr2:173848593..173850248-chr2:173906462..173908471,2	MCF-7	breast:
10	chr2:173838607..173842976-chr2:173848438..173851310,4	MCF-7	breast:

No data

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10497390	1.00[CEU][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11884510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11890301	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11895261	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11897801	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs16861119	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16861121	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16861122	0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16861133	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16861161	1.00[CEU][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1986155	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2044516	1.00[CEU][hapmap]
rs2468389	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs2676499	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs3769242	0.86[AFR][1000 genomes]
rs41414646	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41473447	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41514546	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4989335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4989336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55667313	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55815300	0.94[EUR][1000 genomes]
rs56041203	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56281308	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56333621	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs57619371	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58097901	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58634128	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59492040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60761259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61542186	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61688627	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6705188	0.85[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6707251	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6707359	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6713228	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6719635	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6722709	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6734119	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6738094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6738441	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73977748	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73977749	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73977751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73977753	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73977754	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73977755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73977757	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs938668	1.00[CEU][hapmap];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834459	chr2:173735192-173926750	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173832200-173850000	Weak transcription	Brain Anterior Caudate	brain
2	chr2:173832600-173850200	Weak transcription	Brain Hippocampus Middle	brain
3	chr2:173833800-173855600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr2:173833800-173859000	Weak transcription	Fetal Intestine Small	intestine
5	chr2:173833800-173860800	Weak transcription	Right Ventricle	heart
6	chr2:173834200-173855800	Weak transcription	Brain Angular Gyrus	brain
7	chr2:173835800-173886800	Weak transcription	Lung	lung
8	chr2:173842400-173850800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr2:173842600-173850000	Weak transcription	Fetal Heart	heart
10	chr2:173842800-173855800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr2:173843200-173850000	Weak transcription	Left Ventricle	heart
12	chr2:173843200-173850000	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr2:173843200-173861400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr2:173843400-173858200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr2:173843600-173850400	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr2:173844200-173850000	Weak transcription	Liver	Liver
17	chr2:173845400-173853200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr2:173847800-173851800	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr2:173848000-173851000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr2:173848800-173854400	Weak transcription	Ovary	ovary
21	chr2:173849000-173850400	Strong transcription	Fetal Stomach	stomach
22	chr2:173849200-173850200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr2:173849400-173850000	Enhancers	Thymus	Thymus
24	chr2:173849400-173850000	Enhancers	A549	lung
25	chr2:173849400-173850600	Enhancers	Fetal Thymus	thymus
26	chr2:173849800-173850000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr2:173849800-173850000	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr2:173849800-173850000	Enhancers	HMEC	breast
29	chr2:173849800-173850000	Enhancers	NHEK	skin
30	chr2:173849800-173850200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr2:173849800-173850200	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr2:173849800-173850400	Enhancers	Psoas Muscle	Psoas
33	chr2:173849800-173850600	Enhancers	Fetal Brain Male	brain
34	chr2:173849800-173851200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr2:173849800-173851200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr2:173849800-173851200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr2:173849800-173851200	Flanking Active TSS	Hela-S3	cervix
38	chr2:173849800-173861200	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links