Variant report

Variant	rs1441009
Chromosome Location	chr1:120307515-120307516
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:120300614..120303588-chr1:120307182..120308766,2	MCF-7	breast:
2	chr1:120305431..120308946-chr1:120308988..120311839,5	K562	blood:
3	chr1:120306158..120308946-chr1:120309949..120314499,4	K562	blood:

Variant related genes	Relation type
ENSG00000134240	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12562383	0.83[YRI][hapmap]
rs2843019	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3790693	0.80[EUR][1000 genomes]
rs3790694	0.81[YRI][hapmap];0.80[EUR][1000 genomes]
rs3790696	0.81[EUR][1000 genomes]
rs3828089	0.82[YRI][hapmap];0.81[EUR][1000 genomes]
rs517237	0.92[CEU][hapmap]
rs596104	0.86[CEU][hapmap]
rs619167	0.92[CEU][hapmap]
rs662924	0.85[CEU][hapmap];0.81[AMR][1000 genomes]
rs673816	0.92[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932014	chr1:119476480-120471049	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
2	nsv1000939	chr1:119983342-120471049	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv831204	chr1:120266449-120314091	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv831215	chr1:120266449-120448469	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv428201	chr1:120267313-120697156	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	esv2757750	chr1:120267313-121226013	Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
7	esv2758965	chr1:120267313-121226013	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:120286800-120310000	Weak transcription	Psoas Muscle	Psoas
2	chr1:120287000-120308200	Weak transcription	Stomach Mucosa	stomach
3	chr1:120287200-120308800	Weak transcription	Fetal Kidney	kidney
4	chr1:120291000-120310600	Weak transcription	Placenta	Placenta
5	chr1:120298200-120312200	Weak transcription	Right Ventricle	heart
6	chr1:120301000-120311600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:120302600-120308400	Weak transcription	Colonic Mucosa	Colon
8	chr1:120302600-120308400	Weak transcription	Fetal Intestine Small	intestine
9	chr1:120306200-120307600	Transcr. at gene 5' and 3'	Liver	Liver
10	chr1:120306800-120307600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
11	chr1:120307000-120308400	Enhancers	HepG2	liver
12	chr1:120307200-120307600	Genic enhancers	Rectal Mucosa Donor 31	rectum
13	chr1:120307200-120308200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr1:120307200-120308400	Weak transcription	Fetal Intestine Large	intestine
15	chr1:120307200-120308600	Weak transcription	Fetal Heart	heart
16	chr1:120307200-120308800	Weak transcription	Fetal Stomach	stomach
17	chr1:120307200-120308800	Weak transcription	Left Ventricle	heart
18	chr1:120307200-120309000	Weak transcription	Esophagus	oesophagus
19	chr1:120307200-120309200	Weak transcription	Gastric	stomach
20	chr1:120307200-120309600	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr1:120307200-120312000	Active TSS	Duodenum Mucosa	Duodenum
22	chr1:120307400-120308600	Active TSS	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links