Variant report

Variant	rs6825623
Chromosome Location	chr4:147569553-147569554
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:147569383..147571342-chr4:147575306..147577219,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs17022075	1.00[EUR][1000 genomes]
rs28397039	1.00[EUR][1000 genomes]
rs28694531	1.00[EUR][1000 genomes]
rs55789811	1.00[EUR][1000 genomes]
rs55979124	1.00[EUR][1000 genomes]
rs56925901	1.00[EUR][1000 genomes]
rs56939845	1.00[EUR][1000 genomes]
rs59895059	1.00[EUR][1000 genomes]
rs6830203	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6843989	1.00[EUR][1000 genomes]
rs6857438	1.00[EUR][1000 genomes]
rs73852704	1.00[EUR][1000 genomes]
rs73852707	1.00[EUR][1000 genomes]
rs73852718	1.00[EUR][1000 genomes]
rs73852721	1.00[EUR][1000 genomes]
rs73852722	1.00[EUR][1000 genomes]
rs73852869	1.00[EUR][1000 genomes]
rs73852883	1.00[EUR][1000 genomes]
rs73852895	1.00[EUR][1000 genomes]
rs73852898	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73855650	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461675	chr4:147116864-147768206	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv595651	chr4:147116864-147768206	Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv830107	chr4:147452434-147635720	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv880238	chr4:147469559-147617963	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
5	esv2753640	chr4:147538395-147641395	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	esv2754145	chr4:147538395-147641395	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:147568600-147569600	Bivalent Enhancer	Brain Germinal Matrix	brain
2	chr4:147568600-147569800	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
3	chr4:147568600-147569800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
4	chr4:147568600-147569800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
5	chr4:147568600-147569800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
6	chr4:147568600-147569800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr4:147568600-147570200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
8	chr4:147568600-147570200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
9	chr4:147568800-147569600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:147568800-147569600	Bivalent Enhancer	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr4:147568800-147569600	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr4:147568800-147569800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
13	chr4:147568800-147569800	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
14	chr4:147568800-147569800	Bivalent Enhancer	Brain Cingulate Gyrus	brain
15	chr4:147568800-147569800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
16	chr4:147569000-147569600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
17	chr4:147569000-147569600	Bivalent Enhancer	Fetal Heart	heart
18	chr4:147569000-147569800	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr4:147569000-147569800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr4:147569000-147570200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
21	chr4:147569200-147569600	Bivalent/Poised TSS	ES-UCSF4 Cell Line	embryonic stem cell
22	chr4:147569200-147569800	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr4:147569400-147569600	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
24	chr4:147569400-147569600	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr4:147569400-147569600	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr4:147569400-147569800	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr4:147569400-147569800	Bivalent Enhancer	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links