Variant report

Variant	rs73036860
Chromosome Location	chr1:169340344-169340345
allele	A/C
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	GATA1	chr1:169340022-169341031	PBDE	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:169073561..169077593-chr1:169336088..169341683,7	K562	blood:
2	chr1:169338121..169342264-chr1:169451874..169455112,4	K562	blood:
3	chr1:169337259..169338842-chr1:169338923..169340546,3	MCF-7	breast:
4	chr1:169275275..169277238-chr1:169338409..169341241,2	K562	blood:

Variant related genes	Relation type
NME7	TF binding region
ENSG00000117475	Chromatin interaction
ENSG00000143153	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs16862089	1.00[AMR][1000 genomes]
rs16862091	1.00[AMR][1000 genomes]
rs16862101	1.00[AMR][1000 genomes]
rs57339033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57556667	1.00[AMR][1000 genomes]
rs58003088	1.00[AMR][1000 genomes]
rs58149696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58775541	1.00[AMR][1000 genomes]
rs58860567	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6656776	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6664612	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6687062	1.00[AMR][1000 genomes]
rs73034687	1.00[AMR][1000 genomes]
rs73034701	1.00[AMR][1000 genomes]
rs73035376	1.00[AMR][1000 genomes]
rs73035381	1.00[AMR][1000 genomes]
rs73036804	1.00[AMR][1000 genomes]
rs73036820	1.00[AMR][1000 genomes]
rs73036830	1.00[AMR][1000 genomes]
rs73036833	1.00[AMR][1000 genomes]
rs73036856	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73041751	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73041774	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73051105	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73051107	1.00[AMR][1000 genomes]
rs7417281	1.00[AMR][1000 genomes]
rs7534851	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer 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	56 gene(s)	inside rSNPs	diseases
2	nsv1010010	chr1:169189586-169347545	Active TSS Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv872531	chr1:169191860-169388193	Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv872532	chr1:169275630-169363203	Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv831871	chr1:169320673-169486680	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169338000-169351200	Weak transcription	Lung	lung
2	chr1:169338000-169351200	Weak transcription	Spleen	Spleen
3	chr1:169338000-169353600	Weak transcription	Small Intestine	intestine
4	chr1:169338000-169358000	Weak transcription	Esophagus	oesophagus
5	chr1:169338000-169360000	Weak transcription	Fetal Heart	heart
6	chr1:169338000-169360400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:169338000-169365200	Weak transcription	Gastric	stomach
8	chr1:169338000-169365600	Weak transcription	Pancreas	Pancrea
9	chr1:169338200-169340600	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr1:169338200-169341200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr1:169338200-169341600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr1:169338200-169345800	Weak transcription	Primary B cells from peripheral blood	blood
13	chr1:169338200-169345800	Weak transcription	Ovary	ovary
14	chr1:169338200-169351800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr1:169338200-169360400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr1:169338200-169360400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:169338200-169362200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr1:169338200-169363600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr1:169338200-169363600	Weak transcription	Stomach Mucosa	stomach
20	chr1:169338200-169369000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr1:169338400-169345800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr1:169338400-169345800	Weak transcription	Right Ventricle	heart
23	chr1:169338400-169349600	Weak transcription	HSMMtube	muscle
24	chr1:169338400-169360200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr1:169338400-169362600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr1:169338600-169340400	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr1:169338600-169341600	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr1:169338600-169341800	Weak transcription	Fetal Kidney	kidney
29	chr1:169338600-169345800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr1:169338600-169345800	Weak transcription	Colonic Mucosa	Colon
31	chr1:169338600-169345800	Weak transcription	Colon Smooth Muscle	Colon
32	chr1:169338600-169345800	Weak transcription	Psoas Muscle	Psoas
33	chr1:169338600-169346000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr1:169338600-169346000	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr1:169338600-169349800	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr1:169338600-169351400	Weak transcription	Thymus	Thymus
37	chr1:169338600-169352200	Weak transcription	Aorta	Aorta
38	chr1:169338600-169352200	Weak transcription	Fetal Stomach	stomach
39	chr1:169338600-169352400	Weak transcription	Fetal Intestine Small	intestine
40	chr1:169338600-169352800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr1:169338600-169357600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr1:169338800-169340400	Genic enhancers	Primary T cells from cord blood	blood
43	chr1:169338800-169340800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr1:169338800-169341600	Weak transcription	Primary B cells from cord blood	blood
45	chr1:169338800-169345800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr1:169338800-169347400	Weak transcription	Fetal Brain Female	brain
47	chr1:169339000-169340400	Strong transcription	NH-A	brain
48	chr1:169339000-169340600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr1:169339000-169340800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr1:169339000-169341000	Strong transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links