Variant report

Variant	rs16868673
Chromosome Location	chr5:89771200-89771201
allele	C/G
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	TBP	chr5:89768894-89771288	Hela-S3	cervix:	n/a	n/a
2	MYC	chr5:89771194-89771221	K562	blood:	n/a	n/a
3	ZBTB7A	chr5:89769906-89771228	ECC-1	luminal epithelium:	n/a	n/a
4	MAX	chr5:89769021-89771203	HepG2	liver:	n/a	chr5:89770655-89770665 chr5:89770897-89770908 chr5:89770234-89770244 chr5:89770899-89770906 chr5:89770897-89770907
5	CEBPB	chr5:89770019-89771295	Hela-S3	cervix:	n/a	n/a
6	TBL1XR1	chr5:89770139-89771250	K562	blood:	n/a	n/a
7	STAT3	chr5:89771089-89771587	MCF10A-Er-Src	breast:	n/a	n/a
8	MYC	chr5:89769071-89771203	K562	blood:	n/a	chr5:89770655-89770665 chr5:89770897-89770908 chr5:89770234-89770244 chr5:89770899-89770906 chr5:89770897-89770907
9	POLR2A	chr5:89768908-89771346	MCF10A-Er-Src	breast:	n/a	n/a
10	MAFK	chr5:89769682-89771210	Hela-S3	cervix:	n/a	n/a
11	MXI1	chr5:89769190-89771256	Hela-S3	cervix:	n/a	chr5:89770897-89770906
12	MYC	chr5:89768858-89771510	MCF10A-Er-Src	breast:	n/a	chr5:89770655-89770665 chr5:89770897-89770908 chr5:89770234-89770244 chr5:89770899-89770906 chr5:89770897-89770907
13	STAT3	chr5:89771072-89771562	MCF10A-Er-Src	breast:	n/a	n/a
14	POLR2A	chr5:89768886-89771418	MCF10A-Er-Src	breast:	n/a	n/a
15	MXI1	chr5:89769088-89771258	IMR90	lung:	n/a	chr5:89770897-89770906
16	CHD1	chr5:89770156-89771482	H1-hESC	embryonic stem cell:	n/a	n/a
17	SIN3A	chr5:89768948-89771598	H1-hESC	embryonic stem cell:	n/a	chr5:89770681-89770695
18	POLR2A	chr5:89768788-89771212	H1-hESC	embryonic stem cell:	n/a	n/a
19	MAX	chr5:89769068-89771235	HCT-116	colon:	n/a	chr5:89770655-89770665 chr5:89770897-89770908 chr5:89770234-89770244 chr5:89770899-89770906 chr5:89770897-89770907
20	TCF12	chr5:89769300-89771203	A549	lung:	n/a	chr5:89770551-89770558
21	TBP	chr5:89768975-89771218	K562	blood:	n/a	n/a
22	FOS	chr5:89771039-89771559	MCF10A-Er-Src	breast:	n/a	n/a
23	MXI1	chr5:89769526-89771244	K562	blood:	n/a	chr5:89770897-89770906
24	JUND	chr5:89769664-89771508	K562	blood:	n/a	n/a
25	STAT3	chr5:89771089-89771584	MCF10A-Er-Src	breast:	n/a	n/a
26	STAT3	chr5:89771038-89771587	MCF10A-Er-Src	breast:	n/a	n/a
27	FOS	chr5:89771132-89771469	MCF10A-Er-Src	breast:	n/a	n/a
28	POLR2A	chr5:89769078-89771431	Hela-S3	cervix:	n/a	n/a
29	MAX	chr5:89769097-89771225	A549	lung:	n/a	chr5:89770655-89770665 chr5:89770897-89770908 chr5:89770234-89770244 chr5:89770899-89770906 chr5:89770897-89770907
30	POLR2A	chr5:89769083-89771651	K562	blood:	n/a	n/a
31	CHD1	chr5:89771039-89771223	GM12878	blood:	n/a	n/a
32	E2F4	chr5:89770361-89771547	MCF10A-Er-Src	breast:	n/a	n/a
33	MYC	chr5:89769185-89771496	MCF10A-Er-Src	breast:	n/a	chr5:89770655-89770665 chr5:89770897-89770908 chr5:89770234-89770244 chr5:89770899-89770906 chr5:89770897-89770907
34	MXI1	chr5:89768492-89771313	SK-N-SH	brain:	n/a	chr5:89770897-89770906
35	RCOR1	chr5:89769644-89771575	K562	blood:	n/a	n/a
36	FOS	chr5:89771071-89771559	MCF10A-Er-Src	breast:	n/a	n/a
37	MAX	chr5:89768840-89771219	Hela-S3	cervix:	n/a	chr5:89770655-89770665 chr5:89770897-89770908 chr5:89770234-89770244 chr5:89770899-89770906 chr5:89770897-89770907

No.	Distal block	Cell Line	Cell type
1	chr5:89769110..89772331-chr5:90086907..90091587,4	K562	blood:
2	chr5:89769550..89772254-chr5:89851679..89856622,6	MCF-7	breast:
3	chr5:89770745..89773686-chr5:89789440..89792433,3	K562	blood:
4	chr5:89770106..89771750-chr5:112311690..112313641,2	K562	blood:
5	chr5:89704491..89706992-chr5:89769088..89771566,3	MCF-7	breast:
6	chr5:89768855..89773751-chr5:89822671..89829297,12	K562	blood:
7	chr5:89702524..89708084-chr5:89764247..89773389,22	K562	blood:
8	chr5:89767818..89772796-chr5:89823286..89827702,11	MCF-7	breast:
9	chr5:89768685..89771799-chr5:89852676..89855842,6	MCF-7	breast:
10	chr5:89768584..89771978-chr5:90675764..90678297,3	K562	blood:
11	chr5:89768691..89773005-chr5:89822332..89827140,9	MCF-7	breast:
12	chr5:89766469..89774126-chr5:89823341..89829105,11	K562	blood:
13	chr5:89764343..89768380-chr5:89768675..89771583,10	MCF-7	breast:
14	chr5:89701553..89708894-chr5:89768084..89771807,14	K562	blood:
15	chr5:89769121..89772256-chr5:89935164..89938437,4	K562	blood:
16	chr5:89770310..89772686-chr5:89934294..89936742,2	K562	blood:
17	chr5:89703543..89706963-chr5:89767513..89771420,6	MCF-7	breast:

Variant related genes	Relation type
MBLAC2	TF binding region
ENSG00000153140	Chromatin interaction
ENSG00000255647	Chromatin interaction
ENSG00000113356	Chromatin interaction
ENSG00000113369	Chromatin interaction
ENSG00000172795	Chromatin interaction
ENSG00000164199	Chromatin interaction
ENSG00000176018	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12109087	1.00[EUR][1000 genomes]
rs13355867	1.00[EUR][1000 genomes]
rs13356310	1.00[EUR][1000 genomes]
rs13361468	1.00[EUR][1000 genomes]
rs28489657	1.00[EUR][1000 genomes]
rs28513348	1.00[EUR][1000 genomes]
rs28710856	1.00[EUR][1000 genomes]
rs28869620	1.00[EUR][1000 genomes]
rs6882045	1.00[EUR][1000 genomes]
rs7710077	1.00[EUR][1000 genomes]
rs9293544	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv917025	chr5:89208994-89855436	Enhancers Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	nsv432750	chr5:89410113-90137144	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv432751	chr5:89457044-90090444	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
6	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
7	nsv518131	chr5:89748142-89781594	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
8	nsv882364	chr5:89748142-89808531	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
9	nsv882365	chr5:89770768-89882618	Flanking Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:156 , 50 per page) page: 1 2 3 4

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:89768200-89771400	Active TSS	GM12878-XiMat	blood
2	chr5:89768400-89771200	Active TSS	Brain Angular Gyrus	brain
3	chr5:89768600-89771200	Flanking Active TSS	Stomach Smooth Muscle	stomach
4	chr5:89768600-89771600	Active TSS	NHDF-Ad	bronchial
5	chr5:89768600-89772000	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr5:89768800-89771200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr5:89768800-89771200	Active TSS	Fetal Heart	heart
8	chr5:89768800-89771200	Active TSS	Ovary	ovary
9	chr5:89768800-89771400	Active TSS	Fetal Intestine Large	intestine
10	chr5:89768800-89771400	Active TSS	A549	lung
11	chr5:89768800-89771600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:89768800-89771600	Active TSS	Pancreatic Islets	Pancreatic Islet
13	chr5:89768800-89772000	Active TSS	HUES6 Cell Line	embryonic stem cell
14	chr5:89768800-89773200	Active TSS	H9 Cell Line	embryonic stem cell
15	chr5:89768800-89773400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr5:89769000-89771200	Active TSS	Esophagus	oesophagus
17	chr5:89769000-89771200	Active TSS	Fetal Kidney	kidney
18	chr5:89769000-89771200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
19	chr5:89769000-89771600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr5:89769000-89772000	Active TSS	iPS-15b Cell Line	embryonic stem cell
21	chr5:89769000-89772400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr5:89769200-89771200	Active TSS	Colon Smooth Muscle	Colon
23	chr5:89769200-89771200	Active TSS	Duodenum Smooth Muscle	Duodenum
24	chr5:89769200-89771200	Active TSS	Fetal Brain Female	brain
25	chr5:89769200-89771600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr5:89769200-89772000	Active TSS	HUES48 Cell Line	embryonic stem cell
27	chr5:89769200-89772000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
28	chr5:89769200-89772200	Active TSS	H1 Cell Line	embryonic stem cell
29	chr5:89769200-89772400	Active TSS	HUES64 Cell Line	embryonic stem cell
30	chr5:89769200-89773800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
31	chr5:89769400-89771200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr5:89769400-89771200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr5:89769400-89771200	Active TSS	Brain Anterior Caudate	brain
34	chr5:89769400-89771200	Active TSS	Brain Hippocampus Middle	brain
35	chr5:89769400-89771200	Active TSS	Left Ventricle	heart
36	chr5:89769400-89771200	Active TSS	Rectal Mucosa Donor 29	rectum
37	chr5:89769400-89771200	Active TSS	Right Ventricle	heart
38	chr5:89769400-89771600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr5:89769400-89771600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr5:89769400-89771600	Active TSS	Rectal Smooth Muscle	rectum
41	chr5:89769400-89771800	Active TSS	NHEK	skin
42	chr5:89769400-89772000	Active TSS	iPS-18 Cell Line	embryonic stem cell
43	chr5:89769600-89771200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr5:89769600-89771200	Active TSS	Psoas Muscle	Psoas
45	chr5:89769600-89771200	Active TSS	Thymus	Thymus
46	chr5:89769600-89771200	Active TSS	HSMM	muscle
47	chr5:89769600-89771400	Active TSS	Breast Myoepithelial Primary Cells	Breast
48	chr5:89769600-89771600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr5:89769600-89772000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr5:89769800-89771200	Active TSS	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links