Variant report

Variant	rs9321977
Chromosome Location	chr6:144817792-144817793
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10447422	0.95[GIH][hapmap]
rs10457761	0.91[EUR][1000 genomes]
rs10457764	0.95[GIH][hapmap]
rs10499230	0.95[GIH][hapmap]
rs12197654	0.84[EUR][1000 genomes]
rs12202537	0.90[GIH][hapmap]
rs12204734	0.95[GIH][hapmap]
rs12209699	0.95[GIH][hapmap]
rs17073869	0.83[CHB][hapmap]
rs1918749	0.95[GIH][hapmap]
rs4259269	0.90[GIH][hapmap]
rs4310077	0.81[EUR][1000 genomes]
rs4584002	0.90[CEU][hapmap];0.95[GIH][hapmap];0.87[MKK][hapmap];0.84[EUR][1000 genomes]
rs4896724	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.83[LWK][hapmap];0.92[MEX][hapmap];0.92[MKK][hapmap];0.94[TSI][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4896725	0.89[EUR][1000 genomes]
rs6570634	0.97[GIH][hapmap]
rs6570635	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6906483	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6908911	1.00[ASW][hapmap];0.95[CEU][hapmap];0.84[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6912724	0.95[GIH][hapmap];0.84[MEX][hapmap]
rs6934971	0.84[EUR][1000 genomes]
rs6935011	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6941929	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7768823	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9321976	0.89[EUR][1000 genomes]
rs9496982	1.00[ASW][hapmap];0.90[CEU][hapmap];0.84[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144764400-144838800	Weak transcription	A549	lung
2	chr6:144788800-144821600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:144789400-144822800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:144792400-144823800	Strong transcription	Primary T cells fromperipheralblood	blood
5	chr6:144792400-144824400	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr6:144792400-144826000	Strong transcription	Primary B cells from peripheral blood	blood
7	chr6:144795600-144822600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:144795800-144849800	Weak transcription	HMEC	breast
9	chr6:144797400-144822000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr6:144800000-144829600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:144801200-144818200	Weak transcription	Fetal Heart	heart
12	chr6:144803200-144826800	Weak transcription	Fetal Brain Male	brain
13	chr6:144803400-144869800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:144803800-144821800	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr6:144804200-144821400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr6:144805000-144821200	Strong transcription	Fetal Thymus	thymus
17	chr6:144807200-144828800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr6:144807400-144820200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:144807400-144904000	Weak transcription	Brain Substantia Nigra	brain
20	chr6:144808400-144822600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:144812000-144823000	Weak transcription	Small Intestine	intestine
22	chr6:144812200-144820000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:144812400-144818000	Weak transcription	Gastric	stomach
24	chr6:144812400-144825400	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr6:144812400-144835000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr6:144812400-144840400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr6:144812400-144844800	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr6:144812400-144881000	Weak transcription	Stomach Mucosa	stomach
29	chr6:144812600-144849600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr6:144812600-144849600	Weak transcription	NH-A	brain
31	chr6:144812600-144869800	Weak transcription	Colon Smooth Muscle	Colon
32	chr6:144813400-144825600	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr6:144813400-144850000	Weak transcription	Colonic Mucosa	Colon
34	chr6:144813600-144818200	Weak transcription	Fetal Lung	lung
35	chr6:144813600-144819000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr6:144813600-144819800	Weak transcription	Lung	lung
37	chr6:144813600-144820400	Weak transcription	Esophagus	oesophagus
38	chr6:144813600-144820400	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr6:144813600-144824000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:144813600-144828800	Weak transcription	Right Ventricle	heart
41	chr6:144813600-144834800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr6:144814600-144819800	Weak transcription	Pancreas	Pancrea
43	chr6:144814600-144820000	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr6:144814600-144820200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr6:144814600-144820200	Weak transcription	NHDF-Ad	bronchial
46	chr6:144814600-144820400	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr6:144814600-144822600	Strong transcription	Adipose Nuclei	Adipose
48	chr6:144814800-144818000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr6:144814800-144820200	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr6:144814800-144820200	Weak transcription	Skeletal Muscle Female	skeletal muscle

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