Variant report

Variant	rs12238485
Chromosome Location	chr9:93960952-93960953
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:93959750..93961882-chr9:94121877..94124140,2	K562	blood:
2	chr9:93925433..93927172-chr9:93959426..93961046,2	K562	blood:
3	chr9:93954745..93957356-chr9:93959373..93965297,8	MCF-7	breast:
4	chr9:93959205..93961685-chr9:93970051..93972978,3	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SYK-5	chr9:93960204-93961711	NONHSAT133124
2	lnc-SYK-5	chr9:93960473-93961359	ucscGeneNc_uc004arq_1

No data

Variant related genes	Relation type
ENSG00000273381	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10512206	0.93[ASN][1000 genomes]
rs10991813	0.95[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10991816	0.95[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.85[JPT][hapmap];0.81[MEX][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10991820	0.95[CEU][hapmap];0.94[CHB][hapmap];0.83[CHD][hapmap];0.93[GIH][hapmap];0.81[JPT][hapmap];0.92[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10991826	0.91[ASN][1000 genomes]
rs10991835	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12236714	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12236715	0.93[ASN][1000 genomes]
rs3884186	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3914139	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59546704	0.93[ASN][1000 genomes]
rs7020997	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7025775	0.92[ASN][1000 genomes]
rs7026063	0.91[ASN][1000 genomes]
rs7035931	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7036028	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs773513	0.83[CHB][hapmap]
rs9792456	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93956400-93961600	Enhancers	Fetal Intestine Large	intestine
2	chr9:93956400-93963200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr9:93956600-93961000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr9:93956600-93961200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr9:93956600-93961200	Enhancers	Fetal Lung	lung
6	chr9:93956600-93961200	Enhancers	NHDF-Ad	bronchial
7	chr9:93956600-93961400	Enhancers	Colon Smooth Muscle	Colon
8	chr9:93956600-93961400	Enhancers	Fetal Intestine Small	intestine
9	chr9:93956600-93962000	Weak transcription	Aorta	Aorta
10	chr9:93956600-93962600	Enhancers	Stomach Mucosa	stomach
11	chr9:93956800-93961400	Enhancers	NHLF	lung
12	chr9:93956800-93962400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:93956800-93962400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr9:93957000-93962400	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr9:93957400-93961000	Enhancers	Skeletal Muscle Male	skeletal muscle
16	chr9:93957600-93962400	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr9:93957800-93961200	Enhancers	Adipose Nuclei	Adipose
18	chr9:93957800-93962000	Weak transcription	Primary B cells from peripheral blood	blood
19	chr9:93958000-93961200	Enhancers	Liver	Liver
20	chr9:93958200-93961000	Enhancers	Fetal Kidney	kidney
21	chr9:93958400-93961200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr9:93958600-93961000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr9:93958600-93961000	Enhancers	Osteobl	bone
24	chr9:93958600-93961200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr9:93958600-93961400	Enhancers	HMEC	breast
26	chr9:93958600-93962400	Enhancers	K562	blood
27	chr9:93958800-93961000	Enhancers	NHEK	skin
28	chr9:93959000-93961200	Enhancers	Rectal Smooth Muscle	rectum
29	chr9:93959000-93961800	Weak transcription	Psoas Muscle	Psoas
30	chr9:93959000-93962000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr9:93959400-93961200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
32	chr9:93959600-93961000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr9:93959600-93961000	Enhancers	HUES48 Cell Line	embryonic stem cell
34	chr9:93959600-93961400	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr9:93959600-93963000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr9:93959800-93961000	Weak transcription	Stomach Smooth Muscle	stomach
37	chr9:93959800-93961200	Enhancers	iPS-18 Cell Line	embryonic stem cell
38	chr9:93959800-93962400	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr9:93959800-93969600	Weak transcription	Gastric	stomach
40	chr9:93960000-93961200	Enhancers	HUES6 Cell Line	embryonic stem cell
41	chr9:93960000-93961200	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr9:93960200-93961200	Enhancers	Duodenum Mucosa	Duodenum
43	chr9:93960200-93962000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr9:93960200-93962400	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr9:93960400-93961000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr9:93960400-93961200	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr9:93960400-93961800	Enhancers	Monocytes-CD14+_RO01746	blood
48	chr9:93960400-93962400	Enhancers	Hela-S3	cervix
49	chr9:93960600-93961000	Flanking Active TSS	A549	lung
50	chr9:93960600-93961200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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