Variant report

Variant	rs9535657
Chromosome Location	chr13:51982196-51982197
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:51980509..51983180-chr13:52028617..52030168,2	K562	blood:

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1014934	0.88[ASW][hapmap];0.95[CEU][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3818360	0.89[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.93[LWK][hapmap];0.96[MEX][hapmap];0.96[MKK][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7336209	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7991685	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7993686	0.91[CEU][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap];0.85[LWK][hapmap];0.92[MEX][hapmap];0.88[MKK][hapmap];0.81[TSI][hapmap];0.81[YRI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7997510	0.83[CHB][hapmap];0.82[CHD][hapmap];0.83[GIH][hapmap];0.86[JPT][hapmap];0.80[MEX][hapmap];0.86[TSI][hapmap];0.84[ASN][1000 genomes]
rs9526760	0.98[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9535650	0.91[CEU][hapmap];0.83[CHD][hapmap];0.90[GIH][hapmap];0.81[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9535664	0.89[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9596506	1.00[CEU][hapmap];0.90[GIH][hapmap];0.81[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9788315	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9535657	INTS6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51945800-52016600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:51946200-51988000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr13:51949400-52025000	Weak transcription	Fetal Muscle Leg	muscle
4	chr13:51950000-52025200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr13:51950200-51999800	Weak transcription	Brain Germinal Matrix	brain
6	chr13:51957800-51986600	Weak transcription	Fetal Thymus	thymus
7	chr13:51958000-51996800	Weak transcription	Thymus	Thymus
8	chr13:51958200-51990000	Weak transcription	HMEC	breast
9	chr13:51958400-51987800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr13:51959800-51989400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr13:51962200-51989600	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr13:51962200-51993200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr13:51963200-52024800	Weak transcription	Fetal Intestine Large	intestine
14	chr13:51963600-51989800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr13:51963600-52003600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr13:51968200-51989800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr13:51969600-51995000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr13:51971800-51986600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr13:51971800-51990000	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr13:51971800-52025000	Weak transcription	Fetal Stomach	stomach
21	chr13:51972000-51984400	Weak transcription	NH-A	brain
22	chr13:51972000-51985000	Weak transcription	Fetal Intestine Small	intestine
23	chr13:51972000-51986600	Weak transcription	Fetal Brain Male	brain
24	chr13:51972000-51987800	Weak transcription	Adipose Nuclei	Adipose
25	chr13:51972000-51988000	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr13:51972000-51989600	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr13:51972000-51989800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr13:51972000-51990000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr13:51972000-51990000	Weak transcription	Duodenum Mucosa	Duodenum
30	chr13:51972000-51990000	Weak transcription	K562	blood
31	chr13:51972000-51990000	Weak transcription	NHEK	skin
32	chr13:51972000-51990000	Weak transcription	NHLF	lung
33	chr13:51972000-51993400	Weak transcription	Stomach Mucosa	stomach
34	chr13:51972000-51995000	Weak transcription	Placenta	Placenta
35	chr13:51972000-51995200	Weak transcription	HSMMtube	muscle
36	chr13:51972000-51996800	Weak transcription	Ovary	ovary
37	chr13:51972000-51999400	Weak transcription	Small Intestine	intestine
38	chr13:51972000-52005200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr13:51972000-52016000	Weak transcription	Pancreas	Pancrea
40	chr13:51972200-51986400	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr13:51972200-51989600	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr13:51972400-51985800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr13:51972400-51996400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr13:51972600-51986200	Weak transcription	Osteobl	bone
45	chr13:51972600-51990000	Weak transcription	A549	lung
46	chr13:51972600-51993000	Weak transcription	Colon Smooth Muscle	Colon
47	chr13:51972800-51989600	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr13:51973200-51984800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr13:51973200-51992000	Weak transcription	NHDF-Ad	bronchial
50	chr13:51973600-51988000	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links