Variant report

Variant	rs4742742
Chromosome Location	chr9:101557017-101557018
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101555483..101562112-chr9:101568669..101573087,9	K562	blood:
2	chr9:101534630..101537208-chr9:101556445..101558370,2	MCF-7	breast:
3	chr9:101556573..101560424-chr9:101566029..101574080,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119514	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10119228	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10125255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739704	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10987843	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1555520	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs180038	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs180039	0.91[ASN][1000 genomes]
rs182877	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2058881	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2295922	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337564	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337565	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337566	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337567	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337568	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337570	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337571	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs337580	0.91[ASN][1000 genomes]
rs337583	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs337585	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337586	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337587	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337588	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337589	0.91[ASN][1000 genomes]
rs337590	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs371521	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4133240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4133831	0.87[EUR][1000 genomes]
rs429562	0.87[EUR][1000 genomes]
rs439347	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs453409	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743274	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4743277	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743279	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4743280	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743283	0.82[EUR][1000 genomes]
rs48418	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs507318	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6415847	0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6415849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs692824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7029599	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7039118	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs754222	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7846846	0.91[ASN][1000 genomes]
rs7861840	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7867234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7867317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9409306	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[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	nsv614936	chr9:101182698-101680380	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv893614	chr9:101340316-101671634	Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv893615	chr9:101356515-101678036	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101508600-101557400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr9:101518800-101557200	Weak transcription	Psoas Muscle	Psoas
3	chr9:101521200-101557600	Weak transcription	Fetal Brain Male	brain
4	chr9:101530400-101557800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:101534000-101557600	Weak transcription	Right Atrium	heart
6	chr9:101535800-101557400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr9:101536000-101557600	Weak transcription	Primary B cells from cord blood	blood
8	chr9:101536600-101557600	Weak transcription	Brain Germinal Matrix	brain
9	chr9:101537000-101557400	Weak transcription	Rectal Smooth Muscle	rectum
10	chr9:101544200-101557600	Weak transcription	Colonic Mucosa	Colon
11	chr9:101544800-101557600	Weak transcription	Primary B cells from peripheral blood	blood
12	chr9:101545200-101557200	Weak transcription	Liver	Liver
13	chr9:101546200-101557600	Weak transcription	Left Ventricle	heart
14	chr9:101546400-101557200	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr9:101551000-101557400	Weak transcription	Fetal Brain Female	brain
16	chr9:101552400-101557400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr9:101552600-101557200	Weak transcription	Right Ventricle	heart
18	chr9:101552600-101557600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr9:101552600-101557800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr9:101552800-101557200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr9:101552800-101557200	Weak transcription	Spleen	Spleen
22	chr9:101552800-101557600	Weak transcription	Aorta	Aorta
23	chr9:101553200-101557200	Weak transcription	HepG2	liver
24	chr9:101553200-101558000	Weak transcription	Thymus	Thymus
25	chr9:101553600-101557400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr9:101553600-101557600	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr9:101553600-101557800	Weak transcription	GM12878-XiMat	blood
28	chr9:101553800-101557400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr9:101554000-101557200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr9:101554000-101557200	Weak transcription	Brain Hippocampus Middle	brain
31	chr9:101554000-101557200	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr9:101554000-101557200	Weak transcription	Hela-S3	cervix
33	chr9:101554000-101557200	Weak transcription	HUVEC	blood vessel
34	chr9:101554000-101557400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr9:101554000-101557400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr9:101554000-101557400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr9:101554000-101557400	Weak transcription	Osteobl	bone
38	chr9:101554000-101557600	Weak transcription	NH-A	brain
39	chr9:101554200-101557200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr9:101554200-101557400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:101554200-101557400	Weak transcription	Adipose Nuclei	Adipose
42	chr9:101554200-101557800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr9:101554400-101557200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr9:101554400-101557200	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr9:101554400-101557200	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr9:101554400-101557200	Weak transcription	Fetal Lung	lung
47	chr9:101554400-101557400	Weak transcription	Fetal Heart	heart
48	chr9:101554400-101557600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr9:101554400-101557600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr9:101554600-101557200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links