Variant report

Variant	rs16902812
Chromosome Location	chr5:36201311-36201312
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:36200225..36203141-chr5:36225275..36227713,2	K562	blood:
2	chr5:36200336..36201958-chr5:36203504..36205835,2	MCF-7	breast:
3	chr5:36198832..36201320-chr5:36207777..36209368,2	K562	blood:
4	chr5:36200581..36202679-chr5:36239230..36242677,4	K562	blood:
5	chr5:36194937..36197921-chr5:36200203..36202998,2	K562	blood:
6	chr5:36200967..36203388-chr5:36203456..36205413,2	K562	blood:

Variant related genes	Relation type
ENSG00000152620	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10461961	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10461962	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10461964	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10461965	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10512642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10512648	1.00[AFR][1000 genomes]
rs10941282	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10941283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10941284	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12054662	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12054682	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12054958	1.00[ASW][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12055219	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12652746	1.00[AFR][1000 genomes]
rs12654720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12655033	1.00[ASW][hapmap];1.00[AFR][1000 genomes]
rs12656102	0.87[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12657110	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12658779	0.87[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1364013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1364014	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1364015	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16902793	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16902797	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16902801	1.00[AFR][1000 genomes]
rs16902813	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16902827	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16902836	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16902845	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16902871	1.00[ASW][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16902911	0.86[CHB][hapmap];1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs16902928	0.86[MEX][hapmap]
rs2202006	0.86[MEX][hapmap]
rs28362652	1.00[AFR][1000 genomes]
rs2937535	1.00[AFR][1000 genomes]
rs3849785	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3849787	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3900936	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4869470	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869471	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869472	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869624	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869627	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869628	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869630	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4869633	0.85[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4869637	1.00[ASW][hapmap];0.87[CHB][hapmap];0.87[CHD][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs56815690	0.86[ASN][1000 genomes]
rs59754678	0.84[ASN][1000 genomes]
rs6886540	0.87[CHB][hapmap];0.91[CHD][hapmap];0.82[ASN][1000 genomes]
rs6898451	0.84[ASN][1000 genomes]
rs73081933	0.86[ASN][1000 genomes]
rs878608	0.87[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9637790	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs991033	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs991034	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830262	chr5:36074311-36293872	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36154400-36210800	Weak transcription	Small Intestine	intestine
2	chr5:36164800-36220800	Weak transcription	Gastric	stomach
3	chr5:36169600-36202400	Weak transcription	Fetal Heart	heart
4	chr5:36171800-36220600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr5:36172000-36229200	Weak transcription	Colonic Mucosa	Colon
6	chr5:36175200-36202400	Weak transcription	Right Ventricle	heart
7	chr5:36175200-36220800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr5:36175600-36222400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr5:36179000-36222800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr5:36179000-36230000	Weak transcription	Psoas Muscle	Psoas
11	chr5:36179200-36210400	Weak transcription	Fetal Kidney	kidney
12	chr5:36179200-36212600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr5:36181200-36202600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr5:36181400-36212800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr5:36182200-36214800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr5:36182800-36220400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr5:36182800-36220600	Weak transcription	Brain Angular Gyrus	brain
18	chr5:36190000-36202600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr5:36190000-36220800	Weak transcription	Spleen	Spleen
20	chr5:36190200-36207400	Strong transcription	Dnd41	blood
21	chr5:36190200-36220800	Weak transcription	Esophagus	oesophagus
22	chr5:36190400-36220800	Weak transcription	Lung	lung
23	chr5:36190600-36211000	Weak transcription	Fetal Stomach	stomach
24	chr5:36190600-36227400	Weak transcription	Thymus	Thymus
25	chr5:36190800-36202800	Strong transcription	HSMM	muscle
26	chr5:36190800-36206200	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr5:36190800-36211000	Weak transcription	Fetal Intestine Small	intestine
28	chr5:36191400-36203000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr5:36191800-36202400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr5:36191800-36220600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr5:36191800-36230000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:36192000-36202600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr5:36192000-36206000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr5:36192000-36224200	Weak transcription	Aorta	Aorta
35	chr5:36192600-36227800	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr5:36193600-36220800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr5:36193600-36220800	Weak transcription	Pancreas	Pancrea
38	chr5:36193800-36203800	Strong transcription	Primary T helper cells PMA-I stimulated	--
39	chr5:36194000-36207400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr5:36194200-36207800	Weak transcription	Stomach Mucosa	stomach
41	chr5:36194600-36202600	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr5:36195000-36203000	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr5:36195400-36202600	Weak transcription	Left Ventricle	heart
44	chr5:36195400-36205200	Strong transcription	Liver	Liver
45	chr5:36196000-36202600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr5:36196400-36202600	Weak transcription	Brain Anterior Caudate	brain
47	chr5:36196600-36210000	Weak transcription	HSMMtube	muscle
48	chr5:36196600-36236600	Weak transcription	GM12878-XiMat	blood
49	chr5:36196800-36205200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr5:36197000-36202600	Weak transcription	NHLF	lung

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