Variant report

Variant	rs10849890
Chromosome Location	chr12:121902725-121902726
allele	C/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:121861656..121865460-chr12:121901915..121906805,6	K562	blood:
2	chr12:121902658..121907568-chr12:122239086..122242306,5	K562	blood:
3	chr12:121902723..121905166-chr9:139618186..139620780,2	MCF-7	breast:
4	chr12:121902476..121905404-chr12:122150054..122152707,2	K562	blood:
5	chr12:121902246..121907496-chr12:121907780..121909749,6	MCF-7	breast:
6	chr12:121865513..121867270-chr12:121902335..121904381,2	K562	blood:
7	chr12:121888904..121894167-chr12:121900825..121906643,6	K562	blood:
8	chr12:121886391..121888457-chr12:121900552..121903367,3	K562	blood:
9	chr12:121837983..121842032-chr12:121901843..121907067,6	MCF-7	breast:
10	chr12:121902658..121907689-chr12:122234728..122241054,9	K562	blood:

No data

Variant related genes	Relation type
ENSG00000089094	Chromatin interaction
ENSG00000139718	Chromatin interaction
ENSG00000188735	Chromatin interaction
ENSG00000139725	Chromatin interaction
ENSG00000272849	Chromatin interaction
ENSG00000233016	Chromatin interaction
ENSG00000212694	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10444490	0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10744761	0.81[AMR][1000 genomes]
rs10744762	0.82[ASW][hapmap];0.93[CEU][hapmap];0.96[MEX][hapmap];0.92[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10774592	0.96[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10774593	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10849876	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10849883	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10849886	1.00[CEU][hapmap];0.91[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10849888	0.85[CEU][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10849892	0.83[ASN][1000 genomes]
rs11065566	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065569	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12579582	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61955091	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6489811	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7134248	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7296507	0.87[ASW][hapmap];0.96[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap];0.86[JPT][hapmap];0.95[LWK][hapmap];0.96[MEX][hapmap];0.95[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7302836	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7961855	0.92[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7962128	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7962143	0.96[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7976840	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7977709	0.90[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.82[ASN][1000 genomes]
rs7980819	0.93[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs889970	0.87[ASW][hapmap];0.96[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.86[JPT][hapmap];0.95[LWK][hapmap];0.96[MEX][hapmap];0.88[MKK][hapmap];0.89[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10849890	TMEM120B	cis	cerebellum	SCAN
rs10849890	CLIP1	cis	parietal	SCAN
rs10849890	TAOK3	cis	parietal	SCAN

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:121861400-121903600	Weak transcription	Right Atrium	heart
2	chr12:121879200-121903400	Weak transcription	Hela-S3	cervix
3	chr12:121879200-121904000	Weak transcription	Small Intestine	intestine
4	chr12:121880000-121903600	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr12:121880000-121904000	Weak transcription	Aorta	Aorta
6	chr12:121880800-121902800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr12:121881800-121903400	Weak transcription	A549	lung
8	chr12:121883200-121903600	Weak transcription	Brain Anterior Caudate	brain
9	chr12:121883400-121903200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr12:121885600-121903600	Weak transcription	Liver	Liver
11	chr12:121889800-121903400	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr12:121890200-121903400	Weak transcription	Fetal Lung	lung
13	chr12:121890400-121902800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr12:121890400-121903400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr12:121890800-121902800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr12:121890800-121903400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr12:121890800-121903400	Weak transcription	Duodenum Mucosa	Duodenum
18	chr12:121890800-121903400	Weak transcription	Fetal Intestine Large	intestine
19	chr12:121890800-121903400	Weak transcription	HMEC	breast
20	chr12:121890800-121903400	Weak transcription	NHEK	skin
21	chr12:121890800-121903600	Weak transcription	NHDF-Ad	bronchial
22	chr12:121891000-121903200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr12:121891000-121903200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr12:121891000-121903400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr12:121891200-121903600	Weak transcription	Colonic Mucosa	Colon
26	chr12:121891200-121903800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr12:121891400-121903400	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr12:121891400-121903600	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr12:121891800-121904000	Weak transcription	Lung	lung
30	chr12:121892200-121903400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr12:121892800-121903600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr12:121893200-121903600	Weak transcription	Brain Angular Gyrus	brain
33	chr12:121893200-121903800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr12:121893800-121904000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr12:121894200-121903200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr12:121894200-121903400	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr12:121894200-121903600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr12:121894200-121903800	Weak transcription	Right Ventricle	heart
39	chr12:121894400-121903400	Weak transcription	Thymus	Thymus
40	chr12:121894600-121903600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr12:121894800-121903600	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr12:121894800-121903600	Weak transcription	Stomach Smooth Muscle	stomach
43	chr12:121895600-121904000	Weak transcription	Esophagus	oesophagus
44	chr12:121896000-121903400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr12:121899000-121903000	Strong transcription	Fetal Intestine Small	intestine
46	chr12:121899000-121903400	Weak transcription	HSMMtube	muscle
47	chr12:121899200-121903600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr12:121899600-121903000	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr12:121899600-121903200	Weak transcription	Placenta	Placenta
50	chr12:121899600-121903600	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links