Variant report

Variant	rs9844955
Chromosome Location	chr3:24227919-24227920
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:24226799..24228075-chr3:24279198..24280289,8	MCF-7	breast:
2	chr3:23957669..23959177-chr3:24227758..24229800,2	K562	blood:
3	chr3:24040049..24041089-chr3:24227019..24228043,3	MCF-7	breast:
4	chr3:24227567..24229644-chr3:24275208..24278137,2	MCF-7	breast:
5	chr3:24227147..24228071-chr3:24641147..24641703,2	K562	blood:
6	chr3:24227532..24228092-chr3:24279425..24280173,2	K562	blood:
7	chr3:24227575..24229278-chr3:24535483..24537520,2	K562	blood:
8	chr3:23957342..23959177-chr3:24227758..24229606,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000151090	Chromatin interaction
ENSG00000174748	Chromatin interaction
ENSG00000197885	Chromatin interaction
ENSG00000228791	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs55888013	0.91[EUR][1000 genomes]
rs73037623	0.82[EUR][1000 genomes]
rs73037662	0.91[EUR][1000 genomes]
rs73037670	0.91[EUR][1000 genomes]
rs9881663	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883105	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834639	chr3:24037113-24233925	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv3733	chr3:24216577-24261749	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24186200-24230800	Weak transcription	Fetal Intestine Large	intestine
2	chr3:24223200-24234400	Weak transcription	HepG2	liver
3	chr3:24223400-24233400	Weak transcription	Liver	Liver
4	chr3:24225000-24232800	Weak transcription	Fetal Lung	lung
5	chr3:24225800-24228000	Enhancers	Psoas Muscle	Psoas
6	chr3:24225800-24228200	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr3:24226000-24228800	Enhancers	NHDF-Ad	bronchial
8	chr3:24226400-24230000	Weak transcription	Aorta	Aorta
9	chr3:24227000-24228000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:24227000-24228000	Enhancers	Placenta Amnion	Placenta Amnion
11	chr3:24227000-24228200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr3:24227200-24228000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:24227200-24228000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:24227200-24228000	Enhancers	Right Atrium	heart
15	chr3:24227200-24228200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr3:24227400-24238800	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr3:24227600-24228800	Weak transcription	Colon Smooth Muscle	Colon
18	chr3:24227600-24231600	Weak transcription	Fetal Intestine Small	intestine
19	chr3:24227600-24231600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr3:24227600-24233600	Weak transcription	Gastric	stomach
21	chr3:24227800-24231600	Weak transcription	Left Ventricle	heart
22	chr3:24227800-24231800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr3:24227800-24233000	Weak transcription	Brain Hippocampus Middle	brain
24	chr3:24227800-24233400	Weak transcription	Adipose Nuclei	Adipose
25	chr3:24227800-24233400	Weak transcription	Brain Angular Gyrus	brain
26	chr3:24227800-24233400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr3:24227800-24233400	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr3:24227800-24233600	Weak transcription	Rectal Smooth Muscle	rectum
29	chr3:24227800-24233600	Weak transcription	Spleen	Spleen
30	chr3:24227800-24234200	Weak transcription	Brain Germinal Matrix	brain
31	chr3:24227800-24239200	Weak transcription	Pancreas	Pancrea
32	chr3:24227800-24254200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links