Variant report

Variant	rs7204738
Chromosome Location	chr16:47919021-47919022
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	chr16:47916252..47919078-chr16:47920056..47921921,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000261325	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11076577	1.00[AMR][1000 genomes]
rs16945483	1.00[AMR][1000 genomes]
rs16945540	1.00[AMR][1000 genomes]
rs1985323	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4324153	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6500353	0.87[AFR][1000 genomes]
rs6500354	0.87[AFR][1000 genomes]
rs7205450	0.85[AFR][1000 genomes]
rs8048189	0.85[AFR][1000 genomes]
rs8057350	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8058843	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8063586	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9925020	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520355	chr16:47424828-48164777	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv525976	chr16:47583872-48035026	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv833218	chr16:47869819-48051745	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:47913200-47920400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr16:47916000-47920200	Weak transcription	NHEK	skin
3	chr16:47917400-47920200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr16:47917600-47919600	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr16:47917600-47921400	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr16:47917600-47923800	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr16:47917800-47921200	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr16:47917800-47922800	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr16:47918000-47919400	Enhancers	Fetal Brain Male	brain
10	chr16:47918000-47922800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr16:47918400-47919600	Enhancers	H9 Cell Line	embryonic stem cell
12	chr16:47918400-47920000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr16:47918400-47920400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr16:47918600-47920200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr16:47918600-47920200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr16:47918600-47920400	Weak transcription	Brain Germinal Matrix	brain
17	chr16:47918600-47920800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr16:47918800-47920000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr16:47918800-47920200	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr16:47918800-47920200	Weak transcription	HMEC	breast
21	chr16:47918800-47920400	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr16:47918800-47920400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr16:47918800-47921400	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr16:47918800-47922200	Weak transcription	Ovary	ovary
25	chr16:47918800-47923400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr16:47918800-47926600	Weak transcription	Fetal Brain Female	brain
27	chr16:47919000-47920600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr16:47919000-47921000	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr16:47919000-47921400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links