Variant report

Variant	rs1112189
Chromosome Location	chr3:143029589-143029590
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:143026689..143032158-chr3:143032635..143039297,9	K562	blood:
2	chr3:143028279..143030490-chr3:143036319..143039500,3	K562	blood:
3	chr3:142947986..142949747-chr3:143028626..143030178,2	K562	blood:
4	chr3:142918145..142921332-chr3:143025862..143029822,3	K562	blood:

Variant related genes	Relation type
ENSG00000240888	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10935487	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12488603	0.83[CEU][hapmap];0.84[MEX][hapmap];0.86[TSI][hapmap];0.83[EUR][1000 genomes]
rs12493473	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17574671	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17574746	0.94[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17636943	0.83[CEU][hapmap];0.85[CHB][hapmap];0.84[EUR][1000 genomes]
rs17637467	0.84[MEX][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs6768217	0.82[CEU][hapmap]
rs6796961	1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6799793	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs73008231	0.93[EUR][1000 genomes];0.82[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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv2757894	chr3:142992697-143285979	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759184	chr3:142992697-143285979	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143015200-143039600	Weak transcription	Brain Substantia Nigra	brain
2	chr3:143018400-143039400	Weak transcription	Primary B cells from cord blood	blood
3	chr3:143022000-143032400	Weak transcription	Fetal Muscle Trunk	muscle
4	chr3:143022400-143032200	Weak transcription	Fetal Thymus	thymus
5	chr3:143022400-143048200	Weak transcription	Psoas Muscle	Psoas
6	chr3:143022600-143030000	Weak transcription	HSMMtube	muscle
7	chr3:143025600-143040000	Weak transcription	Right Atrium	heart
8	chr3:143026600-143033200	Weak transcription	HSMM	muscle
9	chr3:143026600-143047400	Weak transcription	Spleen	Spleen
10	chr3:143026800-143029600	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr3:143026800-143032600	Weak transcription	Right Ventricle	heart
12	chr3:143027000-143030200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:143027000-143031200	Weak transcription	Dnd41	blood
14	chr3:143027000-143032600	Weak transcription	Left Ventricle	heart
15	chr3:143028400-143029600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:143028400-143029600	Enhancers	Fetal Lung	lung
17	chr3:143028400-143029800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:143028600-143029600	Weak transcription	K562	blood
19	chr3:143028600-143029800	Enhancers	Fetal Muscle Leg	muscle
20	chr3:143029000-143029600	Enhancers	Fetal Kidney	kidney
21	chr3:143029000-143030200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr3:143029000-143032400	Weak transcription	NHDF-Ad	bronchial
23	chr3:143029200-143029600	Weak transcription	Primary T cells from cord blood	blood
24	chr3:143029200-143029600	Weak transcription	Ovary	ovary
25	chr3:143029200-143029800	Weak transcription	Aorta	Aorta
26	chr3:143029400-143029800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr3:143029400-143029800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr3:143029400-143045800	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links