Variant report

Variant	rs6564240
Chromosome Location	chr16:75254001-75254002
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	IRF1	chr16:75253819-75254019	K562	blood:	n/a	n/a
2	IRF1	chr16:75253701-75254078	K562	blood:	n/a	n/a
3	RUNX3	chr16:75253713-75254038	GM12878	blood:	n/a	n/a
4	RUNX3	chr16:75253809-75254018	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
CTRB1	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12447197	0.81[EUR][1000 genomes]
rs56974608	0.81[EUR][1000 genomes]
rs6564228	0.81[EUR][1000 genomes]
rs7184591	0.81[EUR][1000 genomes]
rs72802349	0.81[EUR][1000 genomes]
rs8048891	0.81[EUR][1000 genomes]
rs9319479	0.89[EUR][1000 genomes]
rs9319480	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061095	chr16:74519718-75407020	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv532560	chr16:74692406-75411912	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	111 gene(s)	inside rSNPs	diseases
3	nsv916502	chr16:74845880-75732365	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	131 gene(s)	inside rSNPs	diseases
4	nsv1056082	chr16:75004990-75295847	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
5	nsv833282	chr16:75154171-75330634	Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv516504	chr16:75223491-75306402	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv523405	chr16:75227969-75342846	Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
8	esv1806781	chr16:75235390-75307470	Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
9	nsv906909	chr16:75236154-75316074	Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
10	esv1792587	chr16:75237936-75305783	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
11	nsv906910	chr16:75251299-75316074	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
12	nsv906911	chr16:75252526-75296247	Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
13	nsv906912	chr16:75252526-75320827	Flanking Active TSS Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
14	nsv482198	chr16:75252884-75258821	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
15	esv3379292	chr16:75253872-75254172	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:75246800-75261000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr16:75251400-75256200	Weak transcription	Right Atrium	heart
3	chr16:75251600-75261600	Weak transcription	HMEC	breast
4	chr16:75252200-75255000	Active TSS	Pancreas	Pancrea
5	chr16:75252600-75258200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr16:75252600-75262000	Weak transcription	Brain Angular Gyrus	brain
7	chr16:75252800-75254600	Enhancers	Fetal Thymus	thymus
8	chr16:75253000-75254600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
9	chr16:75253000-75256000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr16:75253200-75256000	Weak transcription	Fetal Muscle Leg	muscle
11	chr16:75253200-75256200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr16:75253200-75261800	Weak transcription	Brain Anterior Caudate	brain
13	chr16:75253200-75263400	Weak transcription	HSMMtube	muscle
14	chr16:75253400-75254200	Active TSS	Primary T helper naive cells from peripheral blood	blood
15	chr16:75253400-75261000	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr16:75253400-75261400	Weak transcription	HSMM	muscle
17	chr16:75253600-75254200	Active TSS	Primary T cells fromperipheralblood	blood
18	chr16:75253600-75254200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
19	chr16:75253600-75254200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
20	chr16:75253600-75254400	Active TSS	Primary T regulatory cells fromperipheralblood	blood
21	chr16:75253600-75254400	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr16:75253800-75254200	Active TSS	Primary T cells from cord blood	blood
23	chr16:75253800-75254600	Enhancers	Thymus	Thymus
24	chr16:75254000-75254600	Enhancers	Dnd41	blood
25	chr16:75254000-75254600	Enhancers	GM12878-XiMat	blood
26	chr16:75254000-75256200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr16:75254000-75261400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr16:75254000-75261400	Weak transcription	NHDF-Ad	bronchial
29	chr16:75254000-75262400	Weak transcription	Brain Substantia Nigra	brain
30	chr16:75254000-75262400	Weak transcription	NH-A	brain
31	chr16:75254000-75267600	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links