Variant report

Variant	rs57450712
Chromosome Location	chr6:167320477-167320478
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:167320098..167322424-chr6:167348297..167350309,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FGFR1OP-1	chr6:167319514-167321259	l_3322_chr6:167314133-167321259_testes

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs16899790	1.00[EUR][1000 genomes]
rs16899815	1.00[EUR][1000 genomes]
rs1776	1.00[EUR][1000 genomes]
rs2145959	1.00[EUR][1000 genomes]
rs34544438	1.00[EUR][1000 genomes]
rs35517174	1.00[EUR][1000 genomes]
rs3756831	1.00[EUR][1000 genomes]
rs59100209	1.00[EUR][1000 genomes]
rs60175539	1.00[EUR][1000 genomes]
rs61387345	1.00[EUR][1000 genomes]
rs61602553	1.00[EUR][1000 genomes]
rs61712256	1.00[EUR][1000 genomes]
rs6456135	1.00[EUR][1000 genomes]
rs6456142	1.00[EUR][1000 genomes]
rs6456144	1.00[EUR][1000 genomes]
rs6456147	1.00[EUR][1000 genomes]
rs6899812	1.00[EUR][1000 genomes]
rs6916629	1.00[EUR][1000 genomes]
rs6919742	1.00[EUR][1000 genomes]
rs6920058	1.00[EUR][1000 genomes]
rs6920393	1.00[EUR][1000 genomes]
rs6924611	1.00[EUR][1000 genomes]
rs6933595	1.00[EUR][1000 genomes]
rs6938521	1.00[EUR][1000 genomes]
rs73254674	1.00[EUR][1000 genomes]
rs73788182	1.00[EUR][1000 genomes]
rs73788200	1.00[EUR][1000 genomes]
rs7741161	1.00[EUR][1000 genomes]
rs7753939	1.00[EUR][1000 genomes]
rs7762305	1.00[EUR][1000 genomes]
rs7775401	1.00[EUR][1000 genomes]
rs7775499	1.00[EUR][1000 genomes]
rs7775521	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv605260	chr6:166984094-167455139	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1019381	chr6:167090236-167558598	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
3	nsv538541	chr6:167090236-167558598	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1022866	chr6:167108740-167345629	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv482525	chr6:167151805-167324406	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv605327	chr6:167185674-167360389	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv1027314	chr6:167194653-167355961	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv538542	chr6:167194653-167355961	Strong transcription Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv605332	chr6:167198027-167353701	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv948634	chr6:167200671-167838993	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
11	nsv605333	chr6:167201033-167321693	Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	nsv482507	chr6:167282376-167474915	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167298200-167320800	Weak transcription	Primary T cells from cord blood	blood
2	chr6:167315400-167321200	Weak transcription	Gastric	stomach
3	chr6:167315800-167341600	Weak transcription	Pancreas	Pancrea
4	chr6:167318000-167321400	Weak transcription	Right Atrium	heart
5	chr6:167318200-167320800	Enhancers	Brain Cingulate Gyrus	brain
6	chr6:167318200-167321000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:167318400-167321600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:167318400-167343800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:167318600-167323400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr6:167318600-167342400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:167318800-167321200	Weak transcription	Fetal Brain Male	brain
12	chr6:167318800-167324400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:167318800-167326800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:167319000-167321800	Weak transcription	Brain Germinal Matrix	brain
15	chr6:167319200-167327600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:167320000-167321200	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr6:167320200-167320600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr6:167320200-167320800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr6:167320200-167320800	Enhancers	GM12878-XiMat	blood
20	chr6:167320200-167321200	Weak transcription	Brain Hippocampus Middle	brain
21	chr6:167320200-167321600	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:167320200-167322000	Enhancers	Primary T cells fromperipheralblood	blood
23	chr6:167320200-167322200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr6:167320200-167322200	Enhancers	Fetal Thymus	thymus
25	chr6:167320200-167322400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:167320200-167322600	Enhancers	Brain Anterior Caudate	brain
27	chr6:167320200-167323000	Enhancers	Primary B cells from peripheral blood	blood
28	chr6:167320400-167320800	Weak transcription	Brain Angular Gyrus	brain
29	chr6:167320400-167321800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr6:167320400-167322000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr6:167320400-167322000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr6:167320400-167322200	Enhancers	Primary T helper cells PMA-I stimulated	--
33	chr6:167320400-167322200	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr6:167320400-167322600	Enhancers	Spleen	Spleen
35	chr6:167320400-167322800	Enhancers	Primary B cells from cord blood	blood
36	chr6:167320400-167326000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr6:167320400-167327400	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links