Variant report

Variant	rs9296983
Chromosome Location	chr6:15555426-15555427
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15554891..15556888-chr6:15575926..15577961,2	K562	blood:
2	chr6:15553685..15556253-chr6:15569406..15571140,2	K562	blood:
3	chr6:15553506..15555784-chr6:15662229..15664519,3	K562	blood:

Variant related genes	Relation type
ENSG00000047579	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11756738	0.94[CEU][hapmap];0.86[YRI][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13192791	0.92[EUR][1000 genomes]
rs13198195	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13198335	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13212086	0.86[CEU][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13217513	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1988856	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2056942	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2619531	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6903266	0.93[CEU][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6906100	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6918834	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6937379	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71533648	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs760665	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs760666	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7738263	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7745876	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7745907	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7758659	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7760564	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7765924	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7768128	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs875462	1.00[CEU][hapmap];0.93[GIH][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9296986	1.00[CEU][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9383063	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9396593	0.82[ASW][hapmap];0.93[GIH][hapmap];0.95[MKK][hapmap];0.88[TSI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9464796	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9476847	0.83[AMR][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	nsv428473	chr6:15522653-15595739	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15534400-15609800	Weak transcription	Thymus	Thymus
2	chr6:15547400-15563200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:15550400-15556400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr6:15552000-15556800	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr6:15552200-15556600	Weak transcription	Esophagus	oesophagus
6	chr6:15552200-15569200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:15552400-15555600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr6:15552400-15556200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr6:15552400-15556800	Weak transcription	Spleen	Spleen
10	chr6:15552400-15563000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:15552400-15571800	Weak transcription	Fetal Intestine Small	intestine
12	chr6:15552400-15574200	Weak transcription	Primary T cells from cord blood	blood
13	chr6:15552400-15577400	Weak transcription	Lung	lung
14	chr6:15552400-15578200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:15552600-15556800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:15552600-15557000	Weak transcription	Fetal Heart	heart
17	chr6:15552600-15568800	Weak transcription	Fetal Kidney	kidney
18	chr6:15552600-15569800	Weak transcription	Primary B cells from cord blood	blood
19	chr6:15553000-15555600	Weak transcription	Primary hematopoietic stem cells	blood
20	chr6:15553000-15556200	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr6:15553600-15556000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr6:15553600-15569600	Weak transcription	Left Ventricle	heart
23	chr6:15553800-15556200	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr6:15553800-15563800	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr6:15554000-15555600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr6:15554000-15555800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:15554200-15555600	Weak transcription	Fetal Stomach	stomach
28	chr6:15554400-15577600	Weak transcription	Aorta	Aorta
29	chr6:15554800-15556200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr6:15555000-15555800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr6:15555000-15555800	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr6:15555000-15556000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
33	chr6:15555000-15573200	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr6:15555200-15555800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr6:15555200-15556000	Enhancers	iPS-18 Cell Line	embryonic stem cell
36	chr6:15555200-15556400	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr6:15555200-15556400	Enhancers	HUVEC	blood vessel
38	chr6:15555200-15556400	Flanking Active TSS	K562	blood
39	chr6:15555400-15555800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:15555400-15555800	Enhancers	Placenta	Placenta
41	chr6:15555400-15556000	Enhancers	HUES48 Cell Line	embryonic stem cell
42	chr6:15555400-15556000	Enhancers	iPS-15b Cell Line	embryonic stem cell
43	chr6:15555400-15556200	Enhancers	Adipose Nuclei	Adipose
44	chr6:15555400-15556600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr6:15555400-15556600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr6:15555400-15556800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links