Variant report

Variant	rs184867
Chromosome Location	chr4:152809103-152809104
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	chr4:152803724..152805338-chr4:152808624..152810923,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM160A1-10	chr4:152808057-152810405	l_2755_chr4:152807157-152811090_testes

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs13113197	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs165575	0.87[EUR][1000 genomes]
rs165582	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1682083	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2113977	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs244282	0.92[ASN][1000 genomes]
rs244403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs360919	0.87[EUR][1000 genomes]
rs360920	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs360921	0.92[ASN][1000 genomes]
rs361110	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs361132	0.88[ASN][1000 genomes]
rs361133	0.97[ASN][1000 genomes]
rs361134	0.97[ASN][1000 genomes]
rs361135	0.97[ASN][1000 genomes]
rs361137	0.97[ASN][1000 genomes]
rs361138	0.97[ASN][1000 genomes]
rs361139	0.97[ASN][1000 genomes]
rs361140	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs361159	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs361160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs361161	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs361162	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs361164	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs361165	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs361167	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4391010	0.97[ASN][1000 genomes]
rs471230	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs482406	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs486861	0.92[ASN][1000 genomes]
rs497981	0.92[ASN][1000 genomes]
rs518055	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs518253	0.90[AFR][1000 genomes]
rs523646	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs551375	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs566091	0.81[AFR][1000 genomes]
rs577900	0.97[ASN][1000 genomes]
rs6815631	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6829557	0.92[ASN][1000 genomes]
rs692907	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432644	chr4:152635395-153023402	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2757086	chr4:152776271-152809738	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2759289	chr4:152776271-152809738	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv595731	chr4:152790580-152831309	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv432652	chr4:152791533-152818018	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1030328	chr4:152791533-152875666	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	nsv1028836	chr4:152791680-152879097	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv10588	chr4:152807665-152809854	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152803400-152809200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr4:152804200-152809400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr4:152806400-152809200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr4:152808000-152810000	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr4:152808200-152809600	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr4:152808200-152809600	Enhancers	Muscle Satellite Cultured Cells	--
7	chr4:152808200-152809600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr4:152808200-152809800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr4:152808200-152810200	Enhancers	Primary B cells from peripheral blood	blood
10	chr4:152808200-152810200	Flanking Active TSS	GM12878-XiMat	blood
11	chr4:152808400-152809400	Enhancers	Dnd41	blood
12	chr4:152808400-152809800	Enhancers	Fetal Thymus	thymus
13	chr4:152808400-152810400	Enhancers	Primary B cells from cord blood	blood
14	chr4:152808600-152809400	Enhancers	NHEK	skin
15	chr4:152808800-152810400	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr4:152809000-152809200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr4:152809000-152809400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr4:152809000-152809600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr4:152809000-152809600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr4:152809000-152809600	Weak transcription	Fetal Brain Male	brain
21	chr4:152809000-152810000	Enhancers	Primary T cells fromperipheralblood	blood
22	chr4:152809000-152810800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links